pyglotaran
v0.4.2
Contents:
Introduction
Installation
Quickstart/Cheat-Sheet
Changelog
Authors
User Documentation:
Overview
Data IO
Plotting
Modelling
Parameter
Optimizing
API Documentation
Plugins
Developer Documentation:
Contributing
Plugin development
pyglotaran
»
Index
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Index
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Z
A
a_matrix() (glotaran.builtin.models.kinetic_image.k_matrix.KMatrix method)
a_matrix_as_markdown() (glotaran.builtin.models.kinetic_image.k_matrix.KMatrix method)
a_matrix_non_unibranch() (glotaran.builtin.models.kinetic_image.k_matrix.KMatrix method)
a_matrix_unibranch() (glotaran.builtin.models.kinetic_image.k_matrix.KMatrix method)
add_command() (glotaran.cli.main.Cli method)
add_data_row() (glotaran.builtin.io.ascii.wavelength_time_explicit_file.TimeExplicitFile method)
(glotaran.builtin.io.ascii.wavelength_time_explicit_file.WavelengthExplicitFile method)
add_equal_area_penalties() (glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
add_group() (glotaran.parameter.parameter_group.ParameterGroup method)
add_instantiated_plugin_to_registry() (in module glotaran.plugin_system.base_registry)
add_parameter() (glotaran.parameter.parameter_group.ParameterGroup method)
add_plugin_to_registry() (in module glotaran.plugin_system.base_registry)
add_spectral_constraints() (glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
add_spectral_relations() (glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
add_svd_to_dataset() (in module glotaran.io.prepare_dataset)
add_type() (glotaran.builtin.models.kinetic_image.irf.Irf class method)
(glotaran.builtin.models.kinetic_spectrum.spectral_constraints.SpectralConstraint class method)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShape class method)
(glotaran.builtin.models.spectral.shape.SpectralShape class method)
add_weights() (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel method)
additional_penalty (glotaran.analysis.problem.Problem property)
(glotaran.analysis.problem_grouped.GroupedProblem property)
(glotaran.analysis.problem_ungrouped.UngroupedProblem property)
(glotaran.project.result.Result attribute)
additional_penalty_function (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel attribute)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel attribute)
additional_penalty_function() (glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
all() (glotaran.parameter.parameter_group.ParameterGroup method)
allow_extra_args (glotaran.cli.main.Cli attribute)
allow_interspersed_args (glotaran.cli.main.Cli attribute)
allow_none (glotaran.model.property.ModelProperty property)
amplitude (glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeGaussian property)
(glotaran.builtin.models.spectral.shape.SpectralShapeSkewedGaussian property)
applies() (glotaran.builtin.models.kinetic_spectrum.spectral_constraints.OnlyConstraint method)
(glotaran.builtin.models.kinetic_spectrum.spectral_constraints.ZeroConstraint method)
(glotaran.builtin.models.kinetic_spectrum.spectral_penalties.EqualAreaPenalty method)
(glotaran.builtin.models.kinetic_spectrum.spectral_relations.SpectralRelation method)
apply_kinetic_model_constraints() (in module glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model)
apply_spectral_constraints() (in module glotaran.builtin.models.kinetic_spectrum.spectral_constraints)
apply_spectral_penalties() (in module glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model)
apply_spectral_relations() (in module glotaran.builtin.models.kinetic_spectrum.spectral_relations)
arity (glotaran.cli.commands.util.ValOrRangeOrList attribute)
AsciiDataIo (class in glotaran.builtin.io.ascii.wavelength_time_explicit_file)
axis (glotaran.analysis.problem.GroupedProblemDescriptor attribute)
B
backsweep (glotaran.builtin.models.kinetic_image.irf.IrfGaussian property)
(glotaran.builtin.models.kinetic_image.irf.IrfMultiGaussian property)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralGaussian property)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralMultiGaussian property)
backsweep_period (glotaran.builtin.models.kinetic_image.irf.IrfGaussian property)
(glotaran.builtin.models.kinetic_image.irf.IrfMultiGaussian property)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralGaussian property)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralMultiGaussian property)
bag (glotaran.analysis.problem.Problem property)
(glotaran.analysis.problem_grouped.GroupedProblem property)
(glotaran.analysis.problem_ungrouped.UngroupedProblem property)
bool_str_repr() (in module glotaran.plugin_system.io_plugin_utils)
bool_table_repr() (in module glotaran.plugin_system.io_plugin_utils)
C
calculate() (glotaran.builtin.models.kinetic_image.irf.IrfGaussian method)
(glotaran.builtin.models.kinetic_image.irf.IrfMultiGaussian method)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralGaussian method)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralMultiGaussian method)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeGaussian method)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeOne method)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeZero method)
(glotaran.builtin.models.spectral.shape.SpectralShapeOne method)
(glotaran.builtin.models.spectral.shape.SpectralShapeSkewedGaussian method)
(glotaran.builtin.models.spectral.shape.SpectralShapeZero method)
calculate_additional_penalty() (glotaran.analysis.problem.Problem method)
(glotaran.analysis.problem_grouped.GroupedProblem method)
(glotaran.analysis.problem_ungrouped.UngroupedProblem method)
calculate_dispersion() (glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralGaussian method)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralMultiGaussian method)
calculate_gaussian() (glotaran.builtin.models.spectral.shape.SpectralShapeSkewedGaussian method)
calculate_index_dependent_matrices() (glotaran.analysis.problem.Problem method)
(glotaran.analysis.problem_grouped.GroupedProblem method)
(glotaran.analysis.problem_ungrouped.UngroupedProblem method)
calculate_index_dependent_residual() (glotaran.analysis.problem.Problem method)
(glotaran.analysis.problem_grouped.GroupedProblem method)
(glotaran.analysis.problem_ungrouped.UngroupedProblem method)
calculate_index_independent_matrices() (glotaran.analysis.problem.Problem method)
(glotaran.analysis.problem_grouped.GroupedProblem method)
(glotaran.analysis.problem_ungrouped.UngroupedProblem method)
calculate_index_independent_residual() (glotaran.analysis.problem.Problem method)
(glotaran.analysis.problem_grouped.GroupedProblem method)
(glotaran.analysis.problem_ungrouped.UngroupedProblem method)
calculate_kinetic_matrix_gaussian_irf() (in module glotaran.builtin.models.kinetic_image.kinetic_decay_megacomplex)
calculate_kinetic_matrix_no_irf() (in module glotaran.builtin.models.kinetic_image.kinetic_decay_megacomplex)
calculate_matrices() (glotaran.analysis.problem.Problem method)
(glotaran.analysis.problem_grouped.GroupedProblem method)
(glotaran.analysis.problem_ungrouped.UngroupedProblem method)
calculate_matrix() (glotaran.builtin.models.kinetic_image.kinetic_baseline_megacomplex.KineticBaselineMegacomplex method)
(glotaran.builtin.models.kinetic_image.kinetic_decay_megacomplex.KineticDecayMegacomplex method)
(glotaran.builtin.models.kinetic_spectrum.coherent_artifact_megacomplex.CoherentArtifactMegacomplex method)
(glotaran.builtin.models.spectral.spectral_megacomplex.SpectralMegacomplex method)
(glotaran.model.megacomplex.Megacomplex method)
(in module glotaran.analysis.util)
calculate_residual() (glotaran.analysis.problem.Problem method)
(glotaran.analysis.problem_grouped.GroupedProblem method)
(glotaran.analysis.problem_ungrouped.UngroupedProblem method)
calculate_skewed_gaussian() (glotaran.builtin.models.spectral.shape.SpectralShapeSkewedGaussian method)
callback (glotaran.cli.main.Cli attribute)
capitalize() (glotaran.utils.ipython.MarkdownStr method)
casefold() (glotaran.utils.ipython.MarkdownStr method)
center (glotaran.builtin.models.kinetic_image.irf.IrfGaussian property)
(glotaran.builtin.models.kinetic_image.irf.IrfMultiGaussian property)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralGaussian property)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralMultiGaussian property)
center() (glotaran.utils.ipython.MarkdownStr method)
center_dispersion (glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralGaussian property)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralMultiGaussian property)
check_qualnames_in_tests() (in module glotaran.deprecation.deprecation_utils)
chi_square (glotaran.project.result.Result attribute)
clear() (glotaran.parameter.parameter_group.ParameterGroup method)
Cli (class in glotaran.cli.main)
clp_label (glotaran.analysis.util.LabelAndMatrix attribute)
clp_labels (glotaran.analysis.problem.Problem property)
(glotaran.analysis.problem_grouped.GroupedProblem property)
(glotaran.analysis.problem_ungrouped.UngroupedProblem property)
clps (glotaran.analysis.problem.Problem property)
(glotaran.analysis.problem_grouped.GroupedProblem property)
(glotaran.analysis.problem_ungrouped.UngroupedProblem property)
CoherentArtifactMegacomplex (class in glotaran.builtin.models.kinetic_spectrum.coherent_artifact_megacomplex)
collect_usage_pieces() (glotaran.cli.main.Cli method)
combine() (glotaran.builtin.models.kinetic_image.k_matrix.KMatrix method)
combine_matrices() (in module glotaran.analysis.util)
command() (glotaran.cli.main.Cli method)
command_class (glotaran.cli.main.Cli attribute)
commands (glotaran.cli.main.Cli attribute)
compartment (glotaran.builtin.models.kinetic_spectrum.spectral_constraints.OnlyConstraint property)
(glotaran.builtin.models.kinetic_spectrum.spectral_constraints.ZeroConstraint property)
(glotaran.builtin.models.kinetic_spectrum.spectral_relations.SpectralRelation property)
compartments (glotaran.builtin.models.kinetic_image.initial_concentration.InitialConcentration property)
compartments() (glotaran.builtin.models.kinetic_spectrum.coherent_artifact_megacomplex.CoherentArtifactMegacomplex method)
constrain_matrix_function (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel attribute)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel attribute)
constrain_matrix_function() (glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
context_class (glotaran.cli.main.Cli attribute)
context_settings (glotaran.cli.main.Cli attribute)
convert() (glotaran.cli.commands.util.ValOrRangeOrList method)
copy() (glotaran.parameter.parameter_group.ParameterGroup method)
cost (glotaran.analysis.problem.Problem property)
(glotaran.analysis.problem_grouped.GroupedProblem property)
(glotaran.analysis.problem_ungrouped.UngroupedProblem property)
(glotaran.project.result.Result attribute)
count() (glotaran.analysis.problem.GroupedProblemDescriptor method)
(glotaran.analysis.problem.ProblemGroup method)
(glotaran.analysis.problem.UngroupedProblemDescriptor method)
(glotaran.analysis.util.LabelAndMatrix method)
(glotaran.utils.ipython.MarkdownStr method)
covariance_matrix (glotaran.project.result.Result attribute)
create_index_dependent_result_dataset() (glotaran.analysis.problem.Problem method)
(glotaran.analysis.problem_grouped.GroupedProblem method)
(glotaran.analysis.problem_ungrouped.UngroupedProblem method)
create_index_independent_result_dataset() (glotaran.analysis.problem.Problem method)
(glotaran.analysis.problem_grouped.GroupedProblem method)
(glotaran.analysis.problem_ungrouped.UngroupedProblem method)
create_result_data() (glotaran.analysis.problem.Problem method)
(glotaran.analysis.problem_grouped.GroupedProblem method)
(glotaran.analysis.problem_ungrouped.UngroupedProblem method)
create_result_dataset() (glotaran.analysis.problem.Problem method)
(glotaran.analysis.problem_grouped.GroupedProblem method)
(glotaran.analysis.problem_ungrouped.UngroupedProblem method)
create_spectral_relation_matrix() (in module glotaran.builtin.models.kinetic_spectrum.spectral_relations)
CsvProjectIo (class in glotaran.builtin.io.csv.csv)
D
data (glotaran.analysis.problem.Problem property)
(glotaran.analysis.problem.ProblemGroup attribute)
(glotaran.analysis.problem.UngroupedProblemDescriptor attribute)
(glotaran.analysis.problem_grouped.GroupedProblem property)
(glotaran.analysis.problem_ungrouped.UngroupedProblem property)
(glotaran.project.result.Result attribute)
(glotaran.project.scheme.Scheme attribute)
data_filter (glotaran.project.scheme.SavingOptions attribute)
data_format (glotaran.project.scheme.SavingOptions attribute)
data_io_plugin_table() (in module glotaran.plugin_system.data_io_registration)
data_sizes (glotaran.analysis.problem.ProblemGroup attribute)
DataFileType (class in glotaran.builtin.io.ascii.wavelength_time_explicit_file)
DataIoInterface (class in glotaran.io.interface)
dataset (glotaran.analysis.problem.UngroupedProblemDescriptor attribute)
(glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel property)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel property)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel property)
dataset() (glotaran.builtin.io.ascii.wavelength_time_explicit_file.ExplicitFile method)
(glotaran.builtin.io.ascii.wavelength_time_explicit_file.TimeExplicitFile method)
(glotaran.builtin.io.ascii.wavelength_time_explicit_file.WavelengthExplicitFile method)
DatasetDescriptor (class in glotaran.model.dataset_descriptor)
datasets (glotaran.model.weight.Weight property)
degrees_of_freedom (glotaran.project.result.Result attribute)
deleter() (glotaran.model.property.ModelProperty method)
deprecate() (in module glotaran.deprecation.deprecation_utils)
deprecate_module_attribute() (in module glotaran.deprecation.deprecation_utils)
deprecate_submodule() (in module glotaran.deprecation.deprecation_utils)
descriptor (glotaran.analysis.problem.ProblemGroup attribute)
dispersion_center (glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralGaussian property)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralMultiGaussian property)
display_file() (in module glotaran.utils.ipython)
E
eigen() (glotaran.builtin.models.kinetic_image.k_matrix.KMatrix method)
empty() (glotaran.builtin.models.kinetic_image.k_matrix.KMatrix class method)
encode() (glotaran.utils.ipython.MarkdownStr method)
endswith() (glotaran.utils.ipython.MarkdownStr method)
envvar_list_splitter (glotaran.cli.commands.util.ValOrRangeOrList attribute)
equal_area_penalties (glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel property)
EqualAreaPenalty (class in glotaran.builtin.models.kinetic_spectrum.spectral_penalties)
exclude_from_normalize (glotaran.builtin.models.kinetic_image.initial_concentration.InitialConcentration property)
expandtabs() (glotaran.utils.ipython.MarkdownStr method)
ExplicitFile (class in glotaran.builtin.io.ascii.wavelength_time_explicit_file)
export() (in module glotaran.cli.commands.explore)
EXPR (glotaran.parameter.parameter.Keys attribute)
expression (glotaran.parameter.parameter.Parameter property)
F
fail() (glotaran.cli.commands.util.ValOrRangeOrList method)
fdel (glotaran.model.property.ModelProperty attribute)
fget (glotaran.model.property.ModelProperty attribute)
fill() (glotaran.builtin.models.kinetic_image.initial_concentration.InitialConcentration method)
(glotaran.builtin.models.kinetic_image.irf.IrfGaussian method)
(glotaran.builtin.models.kinetic_image.irf.IrfMeasured method)
(glotaran.builtin.models.kinetic_image.irf.IrfMultiGaussian method)
(glotaran.builtin.models.kinetic_image.k_matrix.KMatrix method)
(glotaran.builtin.models.kinetic_image.kinetic_baseline_megacomplex.KineticBaselineMegacomplex method)
(glotaran.builtin.models.kinetic_image.kinetic_decay_megacomplex.KineticDecayMegacomplex method)
(glotaran.builtin.models.kinetic_image.kinetic_image_dataset_descriptor.KineticImageDatasetDescriptor method)
(glotaran.builtin.models.kinetic_spectrum.coherent_artifact_megacomplex.CoherentArtifactMegacomplex method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_dataset_descriptor.KineticSpectrumDatasetDescriptor method)
(glotaran.builtin.models.kinetic_spectrum.spectral_constraints.OnlyConstraint method)
(glotaran.builtin.models.kinetic_spectrum.spectral_constraints.ZeroConstraint method)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralGaussian method)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralMultiGaussian method)
(glotaran.builtin.models.kinetic_spectrum.spectral_penalties.EqualAreaPenalty method)
(glotaran.builtin.models.kinetic_spectrum.spectral_relations.SpectralRelation method)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeGaussian method)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeOne method)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeZero method)
(glotaran.builtin.models.spectral.shape.SpectralShapeOne method)
(glotaran.builtin.models.spectral.shape.SpectralShapeSkewedGaussian method)
(glotaran.builtin.models.spectral.shape.SpectralShapeZero method)
(glotaran.builtin.models.spectral.spectral_megacomplex.SpectralMegacomplex method)
(glotaran.model.dataset_descriptor.DatasetDescriptor method)
(glotaran.model.megacomplex.Megacomplex method)
(glotaran.model.property.ModelProperty method)
(glotaran.model.weight.Weight method)
filled_dataset_descriptors (glotaran.analysis.problem.Problem property)
(glotaran.analysis.problem_grouped.GroupedProblem property)
(glotaran.analysis.problem_ungrouped.UngroupedProblem property)
finalize_data() (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel method)
finalize_kinetic_image_result() (in module glotaran.builtin.models.kinetic_image.kinetic_image_result)
finalize_kinetic_spectrum_result() (in module glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_result)
finalize_spectral_result() (in module glotaran.builtin.models.spectral.spectral_result)
find() (glotaran.utils.ipython.MarkdownStr method)
find_closest_index() (in module glotaran.analysis.util)
find_overlap() (in module glotaran.analysis.util)
FolderProjectIo (class in glotaran.builtin.io.folder.folder_plugin)
format() (glotaran.utils.ipython.MarkdownStr method)
format_commands() (glotaran.cli.main.Cli method)
format_epilog() (glotaran.cli.main.Cli method)
format_help() (glotaran.cli.main.Cli method)
format_help_text() (glotaran.cli.main.Cli method)
format_map() (glotaran.utils.ipython.MarkdownStr method)
format_options() (glotaran.cli.main.Cli method)
format_usage() (glotaran.cli.main.Cli method)
free_parameter_labels (glotaran.project.result.Result attribute)
from_dataframe() (glotaran.parameter.parameter_group.ParameterGroup class method)
from_dict() (glotaran.builtin.models.kinetic_image.initial_concentration.InitialConcentration class method)
(glotaran.builtin.models.kinetic_image.irf.IrfGaussian class method)
(glotaran.builtin.models.kinetic_image.irf.IrfMeasured class method)
(glotaran.builtin.models.kinetic_image.irf.IrfMultiGaussian class method)
(glotaran.builtin.models.kinetic_image.k_matrix.KMatrix class method)
(glotaran.builtin.models.kinetic_image.kinetic_baseline_megacomplex.KineticBaselineMegacomplex class method)
(glotaran.builtin.models.kinetic_image.kinetic_decay_megacomplex.KineticDecayMegacomplex class method)
(glotaran.builtin.models.kinetic_image.kinetic_image_dataset_descriptor.KineticImageDatasetDescriptor class method)
(glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel class method)
(glotaran.builtin.models.kinetic_spectrum.coherent_artifact_megacomplex.CoherentArtifactMegacomplex class method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_dataset_descriptor.KineticSpectrumDatasetDescriptor class method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel class method)
(glotaran.builtin.models.kinetic_spectrum.spectral_constraints.OnlyConstraint class method)
(glotaran.builtin.models.kinetic_spectrum.spectral_constraints.ZeroConstraint class method)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralGaussian class method)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralMultiGaussian class method)
(glotaran.builtin.models.kinetic_spectrum.spectral_penalties.EqualAreaPenalty class method)
(glotaran.builtin.models.kinetic_spectrum.spectral_relations.SpectralRelation class method)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeGaussian class method)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeOne class method)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeZero class method)
(glotaran.builtin.models.spectral.shape.SpectralShapeOne class method)
(glotaran.builtin.models.spectral.shape.SpectralShapeSkewedGaussian class method)
(glotaran.builtin.models.spectral.shape.SpectralShapeZero class method)
(glotaran.builtin.models.spectral.spectral_megacomplex.SpectralMegacomplex class method)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel class method)
(glotaran.model.base_model.Model class method)
(glotaran.model.dataset_descriptor.DatasetDescriptor class method)
(glotaran.model.megacomplex.Megacomplex class method)
(glotaran.model.weight.Weight class method)
(glotaran.parameter.parameter_group.ParameterGroup class method)
from_list() (glotaran.builtin.models.kinetic_image.initial_concentration.InitialConcentration class method)
(glotaran.builtin.models.kinetic_image.irf.IrfGaussian class method)
(glotaran.builtin.models.kinetic_image.irf.IrfMeasured class method)
(glotaran.builtin.models.kinetic_image.irf.IrfMultiGaussian class method)
(glotaran.builtin.models.kinetic_image.k_matrix.KMatrix class method)
(glotaran.builtin.models.kinetic_image.kinetic_baseline_megacomplex.KineticBaselineMegacomplex class method)
(glotaran.builtin.models.kinetic_image.kinetic_decay_megacomplex.KineticDecayMegacomplex class method)
(glotaran.builtin.models.kinetic_image.kinetic_image_dataset_descriptor.KineticImageDatasetDescriptor class method)
(glotaran.builtin.models.kinetic_spectrum.coherent_artifact_megacomplex.CoherentArtifactMegacomplex class method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_dataset_descriptor.KineticSpectrumDatasetDescriptor class method)
(glotaran.builtin.models.kinetic_spectrum.spectral_constraints.OnlyConstraint class method)
(glotaran.builtin.models.kinetic_spectrum.spectral_constraints.ZeroConstraint class method)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralGaussian class method)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralMultiGaussian class method)
(glotaran.builtin.models.kinetic_spectrum.spectral_penalties.EqualAreaPenalty class method)
(glotaran.builtin.models.kinetic_spectrum.spectral_relations.SpectralRelation class method)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeGaussian class method)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeOne class method)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeZero class method)
(glotaran.builtin.models.spectral.shape.SpectralShapeOne class method)
(glotaran.builtin.models.spectral.shape.SpectralShapeSkewedGaussian class method)
(glotaran.builtin.models.spectral.shape.SpectralShapeZero class method)
(glotaran.builtin.models.spectral.spectral_megacomplex.SpectralMegacomplex class method)
(glotaran.model.dataset_descriptor.DatasetDescriptor class method)
(glotaran.model.megacomplex.Megacomplex class method)
(glotaran.model.weight.Weight class method)
(glotaran.parameter.parameter_group.ParameterGroup class method)
from_list_or_value() (glotaran.parameter.parameter.Parameter class method)
from_yaml_file() (glotaran.project.scheme.Scheme static method)
fromkeys() (glotaran.parameter.parameter_group.ParameterGroup method)
fset (glotaran.model.property.ModelProperty attribute)
ftol (glotaran.project.scheme.Scheme attribute)
full() (glotaran.builtin.models.kinetic_image.k_matrix.KMatrix method)
full_k_matrix() (glotaran.builtin.models.kinetic_image.kinetic_decay_megacomplex.KineticDecayMegacomplex method)
full_label (glotaran.parameter.parameter.Parameter property)
full_penalty (glotaran.analysis.problem.Problem property)
(glotaran.analysis.problem_grouped.GroupedProblem property)
(glotaran.analysis.problem_ungrouped.UngroupedProblem property)
full_plugin_name() (in module glotaran.plugin_system.base_registry)
G
get() (glotaran.parameter.parameter_group.ParameterGroup method)
get_command() (glotaran.cli.main.Cli method)
get_data_file_format() (in module glotaran.builtin.io.ascii.wavelength_time_explicit_file)
get_data_io() (in module glotaran.plugin_system.data_io_registration)
get_data_row() (glotaran.builtin.io.ascii.wavelength_time_explicit_file.ExplicitFile method)
(glotaran.builtin.io.ascii.wavelength_time_explicit_file.TimeExplicitFile method)
(glotaran.builtin.io.ascii.wavelength_time_explicit_file.WavelengthExplicitFile method)
get_dataloader() (in module glotaran.plugin_system.data_io_registration)
get_datasaver() (in module glotaran.plugin_system.data_io_registration)
get_dataset() (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel method)
(glotaran.project.result.Result method)
get_default_type() (glotaran.builtin.models.kinetic_image.irf.Irf class method)
(glotaran.builtin.models.kinetic_spectrum.spectral_constraints.SpectralConstraint class method)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShape class method)
(glotaran.builtin.models.spectral.shape.SpectralShape class method)
get_explicit_axis() (glotaran.builtin.io.ascii.wavelength_time_explicit_file.ExplicitFile method)
(glotaran.builtin.io.ascii.wavelength_time_explicit_file.TimeExplicitFile method)
(glotaran.builtin.io.ascii.wavelength_time_explicit_file.WavelengthExplicitFile method)
get_format_name() (glotaran.builtin.io.ascii.wavelength_time_explicit_file.ExplicitFile method)
(glotaran.builtin.io.ascii.wavelength_time_explicit_file.TimeExplicitFile method)
(glotaran.builtin.io.ascii.wavelength_time_explicit_file.WavelengthExplicitFile method)
get_help() (glotaran.cli.main.Cli method)
get_help_option() (glotaran.cli.main.Cli method)
get_help_option_names() (glotaran.cli.main.Cli method)
get_initial_concentration() (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
get_interval_number() (in module glotaran.builtin.io.ascii.wavelength_time_explicit_file)
get_irf() (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
get_k_matrix() (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
get_label_value_and_bounds_arrays() (glotaran.parameter.parameter_group.ParameterGroup method)
get_megacomplex() (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel method)
get_metavar() (glotaran.cli.commands.util.ValOrRangeOrList method)
get_method_from_plugin() (in module glotaran.plugin_system.base_registry)
get_min_max_from_interval() (in module glotaran.analysis.util)
get_missing_message() (glotaran.cli.commands.util.ValOrRangeOrList method)
get_model() (in module glotaran.plugin_system.model_registration)
get_nr_roots() (glotaran.parameter.parameter_group.ParameterGroup method)
get_observations() (glotaran.builtin.io.ascii.wavelength_time_explicit_file.ExplicitFile method)
(glotaran.builtin.io.ascii.wavelength_time_explicit_file.TimeExplicitFile method)
(glotaran.builtin.io.ascii.wavelength_time_explicit_file.WavelengthExplicitFile method)
get_params() (glotaran.cli.main.Cli method)
get_plugin_from_registry() (in module glotaran.plugin_system.base_registry)
get_project_io() (in module glotaran.plugin_system.project_io_registration)
get_project_io_method() (in module glotaran.plugin_system.project_io_registration)
get_scheme() (glotaran.project.result.Result method)
get_secondary_axis() (glotaran.builtin.io.ascii.wavelength_time_explicit_file.ExplicitFile method)
(glotaran.builtin.io.ascii.wavelength_time_explicit_file.TimeExplicitFile method)
(glotaran.builtin.io.ascii.wavelength_time_explicit_file.WavelengthExplicitFile method)
get_shape() (glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel method)
get_short_help_str() (glotaran.cli.main.Cli method)
get_usage() (glotaran.cli.main.Cli method)
get_value_and_bounds_for_optimization() (glotaran.parameter.parameter.Parameter method)
getter() (glotaran.model.property.ModelProperty method)
global_axis (glotaran.analysis.problem.UngroupedProblemDescriptor attribute)
global_dimension (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel attribute)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel attribute)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel attribute)
global_interval (glotaran.model.weight.Weight property)
global_matrix (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel attribute)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel attribute)
global_matrix() (glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel static method)
glotaran
module
glotaran.analysis
module
glotaran.analysis.nnls
module
glotaran.analysis.optimize
module
glotaran.analysis.problem
module
glotaran.analysis.problem_grouped
module
glotaran.analysis.problem_ungrouped
module
glotaran.analysis.simulation
module
glotaran.analysis.util
module
glotaran.analysis.variable_projection
module
glotaran.builtin
module
glotaran.builtin.io
module
glotaran.builtin.io.ascii
module
glotaran.builtin.io.ascii.wavelength_time_explicit_file
module
glotaran.builtin.io.csv
module
glotaran.builtin.io.csv.csv
module
glotaran.builtin.io.folder
module
glotaran.builtin.io.folder.folder_plugin
module
glotaran.builtin.io.netCDF
module
glotaran.builtin.io.netCDF.netCDF
module
glotaran.builtin.io.sdt
module
glotaran.builtin.io.sdt.sdt_file_reader
module
glotaran.builtin.io.yml
module
glotaran.builtin.io.yml.sanatize
module
glotaran.builtin.io.yml.yml
module
glotaran.builtin.models
module
glotaran.builtin.models.kinetic_image
module
glotaran.builtin.models.kinetic_image.initial_concentration
module
glotaran.builtin.models.kinetic_image.irf
module
glotaran.builtin.models.kinetic_image.k_matrix
module
glotaran.builtin.models.kinetic_image.kinetic_baseline_megacomplex
module
glotaran.builtin.models.kinetic_image.kinetic_decay_megacomplex
module
glotaran.builtin.models.kinetic_image.kinetic_image_dataset_descriptor
module
glotaran.builtin.models.kinetic_image.kinetic_image_model
module
glotaran.builtin.models.kinetic_image.kinetic_image_result
module
glotaran.builtin.models.kinetic_spectrum
module
glotaran.builtin.models.kinetic_spectrum.coherent_artifact_megacomplex
module
glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_dataset_descriptor
module
glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model
module
glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_result
module
glotaran.builtin.models.kinetic_spectrum.spectral_constraints
module
glotaran.builtin.models.kinetic_spectrum.spectral_irf
module
glotaran.builtin.models.kinetic_spectrum.spectral_matrix
module
glotaran.builtin.models.kinetic_spectrum.spectral_penalties
module
glotaran.builtin.models.kinetic_spectrum.spectral_relations
module
glotaran.builtin.models.kinetic_spectrum.spectral_shape
module
glotaran.builtin.models.spectral
module
glotaran.builtin.models.spectral.shape
module
glotaran.builtin.models.spectral.spectral_megacomplex
module
glotaran.builtin.models.spectral.spectral_model
module
glotaran.builtin.models.spectral.spectral_result
module
glotaran.cli
module
glotaran.cli.commands
module
glotaran.cli.commands.explore
module
glotaran.cli.commands.export
module
glotaran.cli.commands.optimize
module
glotaran.cli.commands.pluginlist
module
glotaran.cli.commands.print
module
glotaran.cli.commands.util
module
glotaran.cli.commands.validate
module
glotaran.cli.main
module
glotaran.deprecation
module
glotaran.deprecation.deprecation_utils
module
glotaran.deprecation.modules
module
glotaran.deprecation.modules.glotaran_root
module
glotaran.examples
module
glotaran.examples.sequential
module
glotaran.io
module
glotaran.io.interface
module
glotaran.io.prepare_dataset
module
glotaran.model
module
glotaran.model.attribute
module
glotaran.model.base_model
module
glotaran.model.dataset_descriptor
module
glotaran.model.decorator
module
glotaran.model.megacomplex
module
glotaran.model.property
module
glotaran.model.util
module
glotaran.model.weight
module
glotaran.parameter
module
glotaran.parameter.parameter
module
glotaran.parameter.parameter_group
module
glotaran.plugin_system
module
glotaran.plugin_system.base_registry
module
glotaran.plugin_system.data_io_registration
module
glotaran.plugin_system.io_plugin_utils
module
glotaran.plugin_system.model_registration
module
glotaran.plugin_system.project_io_registration
module
glotaran.project
module
glotaran.project.result
module
glotaran.project.scheme
module
glotaran.utils
module
glotaran.utils.ipython
module
glotaran_version() (in module glotaran.deprecation.deprecation_utils)
group (glotaran.analysis.problem.ProblemGroup attribute)
group() (glotaran.cli.main.Cli method)
group_class (glotaran.cli.main.Cli attribute)
group_tolerance (glotaran.project.scheme.Scheme attribute)
grouped (glotaran.analysis.problem.Problem property)
(glotaran.analysis.problem_grouped.GroupedProblem property)
(glotaran.analysis.problem_ungrouped.UngroupedProblem property)
grouped() (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel method)
(in module glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model)
GroupedProblem (class in glotaran.analysis.problem_grouped)
GroupedProblemDescriptor (class in glotaran.analysis.problem)
groups (glotaran.analysis.problem.Problem property)
(glotaran.analysis.problem_grouped.GroupedProblem property)
(glotaran.analysis.problem_ungrouped.UngroupedProblem property)
groups() (glotaran.parameter.parameter_group.ParameterGroup method)
gtol (glotaran.project.scheme.Scheme attribute)
H
has() (glotaran.parameter.parameter_group.ParameterGroup method)
has_additional_penalty_function (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel attribute)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel attribute)
has_additional_penalty_function() (glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
has_k_matrix() (glotaran.builtin.models.kinetic_image.kinetic_decay_megacomplex.KineticDecayMegacomplex method)
has_kinetic_model_constraints() (in module glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model)
has_matrix_constraints_function (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel attribute)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel attribute)
has_matrix_constraints_function() (glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
has_scaling (glotaran.analysis.problem.ProblemGroup attribute)
has_spectral_penalties() (in module glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model)
I
ignore_unknown_options (glotaran.cli.main.Cli attribute)
index() (glotaran.analysis.problem.GroupedProblemDescriptor method)
(glotaran.analysis.problem.ProblemGroup method)
(glotaran.analysis.problem.UngroupedProblemDescriptor method)
(glotaran.analysis.util.LabelAndMatrix method)
(glotaran.utils.ipython.MarkdownStr method)
index_dependent (glotaran.analysis.problem.Problem property)
(glotaran.analysis.problem_grouped.GroupedProblem property)
(glotaran.analysis.problem_ungrouped.UngroupedProblem property)
index_dependent() (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel method)
(in module glotaran.builtin.models.kinetic_image.kinetic_image_model)
(in module glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model)
indices (glotaran.analysis.problem.GroupedProblemDescriptor attribute)
inferr_file_format() (in module glotaran.plugin_system.io_plugin_utils)
init_bag() (glotaran.analysis.problem.Problem method)
(glotaran.analysis.problem_grouped.GroupedProblem method)
(glotaran.analysis.problem_ungrouped.UngroupedProblem method)
initial_concentration (glotaran.builtin.models.kinetic_image.kinetic_image_dataset_descriptor.KineticImageDatasetDescriptor property)
(glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel property)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_dataset_descriptor.KineticSpectrumDatasetDescriptor property)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel property)
initial_parameters (glotaran.project.result.Result attribute)
InitialConcentration (class in glotaran.builtin.models.kinetic_image.initial_concentration)
interval (glotaran.builtin.models.kinetic_spectrum.spectral_constraints.OnlyConstraint property)
(glotaran.builtin.models.kinetic_spectrum.spectral_constraints.ZeroConstraint property)
(glotaran.builtin.models.kinetic_spectrum.spectral_relations.SpectralRelation property)
invoke() (glotaran.cli.main.Cli method)
involved_compartments (glotaran.builtin.models.kinetic_image.kinetic_decay_megacomplex.KineticDecayMegacomplex property)
involved_compartments() (glotaran.builtin.models.kinetic_image.k_matrix.KMatrix method)
Irf (class in glotaran.builtin.models.kinetic_image.irf)
irf (glotaran.builtin.models.kinetic_image.kinetic_image_dataset_descriptor.KineticImageDatasetDescriptor property)
(glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel property)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_dataset_descriptor.KineticSpectrumDatasetDescriptor property)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel property)
IrfGaussian (class in glotaran.builtin.models.kinetic_image.irf)
IrfMeasured (class in glotaran.builtin.models.kinetic_image.irf)
IrfMultiGaussian (class in glotaran.builtin.models.kinetic_image.irf)
IrfSpectralGaussian (class in glotaran.builtin.models.kinetic_spectrum.spectral_irf)
IrfSpectralMultiGaussian (class in glotaran.builtin.models.kinetic_spectrum.spectral_irf)
is_composite (glotaran.cli.commands.util.ValOrRangeOrList attribute)
is_known_data_format() (in module glotaran.plugin_system.data_io_registration)
is_known_model() (in module glotaran.plugin_system.model_registration)
is_known_project_format() (in module glotaran.plugin_system.project_io_registration)
is_registered_plugin() (in module glotaran.plugin_system.base_registry)
is_unibranched() (glotaran.builtin.models.kinetic_image.k_matrix.KMatrix method)
isalnum() (glotaran.utils.ipython.MarkdownStr method)
isalpha() (glotaran.utils.ipython.MarkdownStr method)
isascii() (glotaran.utils.ipython.MarkdownStr method)
isdecimal() (glotaran.utils.ipython.MarkdownStr method)
isdigit() (glotaran.utils.ipython.MarkdownStr method)
isidentifier() (glotaran.utils.ipython.MarkdownStr method)
islower() (glotaran.utils.ipython.MarkdownStr method)
isnumeric() (glotaran.utils.ipython.MarkdownStr method)
isprintable() (glotaran.utils.ipython.MarkdownStr method)
isspace() (glotaran.utils.ipython.MarkdownStr method)
istitle() (glotaran.utils.ipython.MarkdownStr method)
isupper() (glotaran.utils.ipython.MarkdownStr method)
items() (glotaran.parameter.parameter_group.ParameterGroup method)
iterate_megacomplexes() (glotaran.builtin.models.kinetic_image.kinetic_image_dataset_descriptor.KineticImageDatasetDescriptor method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_dataset_descriptor.KineticSpectrumDatasetDescriptor method)
(glotaran.model.dataset_descriptor.DatasetDescriptor method)
J
jacobian (glotaran.project.result.Result attribute)
join() (glotaran.utils.ipython.MarkdownStr method)
K
k_matrix (glotaran.builtin.models.kinetic_image.kinetic_decay_megacomplex.KineticDecayMegacomplex property)
(glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel property)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel property)
Keys (class in glotaran.parameter.parameter)
keys() (glotaran.parameter.parameter_group.ParameterGroup method)
kinetic_image_matrix_implementation() (in module glotaran.builtin.models.kinetic_image.kinetic_decay_megacomplex)
KineticBaselineMegacomplex (class in glotaran.builtin.models.kinetic_image.kinetic_baseline_megacomplex)
KineticDecayMegacomplex (class in glotaran.builtin.models.kinetic_image.kinetic_decay_megacomplex)
KineticImageDatasetDescriptor (class in glotaran.builtin.models.kinetic_image.kinetic_image_dataset_descriptor)
KineticImageModel (class in glotaran.builtin.models.kinetic_image.kinetic_image_model)
KineticSpectrumDatasetDescriptor (class in glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_dataset_descriptor)
KineticSpectrumModel (class in glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model)
KMatrix (class in glotaran.builtin.models.kinetic_image.k_matrix)
known_data_formats() (in module glotaran.plugin_system.data_io_registration)
known_model_names() (in module glotaran.plugin_system.model_registration)
known_project_formats() (in module glotaran.plugin_system.project_io_registration)
L
label (glotaran.analysis.problem.GroupedProblemDescriptor attribute)
(glotaran.builtin.models.kinetic_image.initial_concentration.InitialConcentration property)
(glotaran.builtin.models.kinetic_image.irf.IrfGaussian property)
(glotaran.builtin.models.kinetic_image.irf.IrfMeasured property)
(glotaran.builtin.models.kinetic_image.irf.IrfMultiGaussian property)
(glotaran.builtin.models.kinetic_image.k_matrix.KMatrix property)
(glotaran.builtin.models.kinetic_image.kinetic_baseline_megacomplex.KineticBaselineMegacomplex property)
(glotaran.builtin.models.kinetic_image.kinetic_decay_megacomplex.KineticDecayMegacomplex property)
(glotaran.builtin.models.kinetic_image.kinetic_image_dataset_descriptor.KineticImageDatasetDescriptor property)
(glotaran.builtin.models.kinetic_spectrum.coherent_artifact_megacomplex.CoherentArtifactMegacomplex property)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_dataset_descriptor.KineticSpectrumDatasetDescriptor property)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralGaussian property)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralMultiGaussian property)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeGaussian property)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeOne property)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeZero property)
(glotaran.builtin.models.spectral.shape.SpectralShapeOne property)
(glotaran.builtin.models.spectral.shape.SpectralShapeSkewedGaussian property)
(glotaran.builtin.models.spectral.shape.SpectralShapeZero property)
(glotaran.builtin.models.spectral.spectral_megacomplex.SpectralMegacomplex property)
(glotaran.model.dataset_descriptor.DatasetDescriptor property)
(glotaran.model.megacomplex.Megacomplex property)
(glotaran.parameter.parameter.Parameter property)
(glotaran.parameter.parameter_group.ParameterGroup property)
LabelAndMatrix (class in glotaran.analysis.util)
level (glotaran.project.scheme.SavingOptions attribute)
list_commands() (glotaran.cli.main.Cli method)
list_commands_for_help() (glotaran.cli.main.Cli method)
list_string_to_tuple() (in module glotaran.builtin.io.yml.sanatize)
ljust() (glotaran.utils.ipython.MarkdownStr method)
load_dataset() (glotaran.builtin.io.ascii.wavelength_time_explicit_file.AsciiDataIo method)
(glotaran.builtin.io.netCDF.netCDF.NetCDFDataIo method)
(glotaran.builtin.io.sdt.sdt_file_reader.SdtDataIo method)
(glotaran.io.interface.DataIoInterface method)
(in module glotaran.plugin_system.data_io_registration)
load_dataset_file() (in module glotaran.cli.commands.util)
load_model() (glotaran.builtin.io.csv.csv.CsvProjectIo method)
(glotaran.builtin.io.folder.folder_plugin.FolderProjectIo method)
(glotaran.builtin.io.yml.yml.YmlProjectIo method)
(glotaran.io.interface.ProjectIoInterface method)
(in module glotaran.plugin_system.project_io_registration)
load_model_file() (in module glotaran.cli.commands.util)
load_parameter_file() (in module glotaran.cli.commands.util)
load_parameters() (glotaran.builtin.io.csv.csv.CsvProjectIo method)
(glotaran.builtin.io.folder.folder_plugin.FolderProjectIo method)
(glotaran.builtin.io.yml.yml.YmlProjectIo method)
(glotaran.io.interface.ProjectIoInterface method)
(in module glotaran.plugin_system.project_io_registration)
load_plugins() (in module glotaran.plugin_system.base_registry)
load_result() (glotaran.builtin.io.csv.csv.CsvProjectIo method)
(glotaran.builtin.io.folder.folder_plugin.FolderProjectIo method)
(glotaran.builtin.io.yml.yml.YmlProjectIo method)
(glotaran.io.interface.ProjectIoInterface method)
(in module glotaran.plugin_system.project_io_registration)
load_scheme() (glotaran.builtin.io.csv.csv.CsvProjectIo method)
(glotaran.builtin.io.folder.folder_plugin.FolderProjectIo method)
(glotaran.builtin.io.yml.yml.YmlProjectIo method)
(glotaran.io.interface.ProjectIoInterface method)
(in module glotaran.plugin_system.project_io_registration)
load_scheme_file() (in module glotaran.cli.commands.util)
location (glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeGaussian property)
(glotaran.builtin.models.spectral.shape.SpectralShapeSkewedGaussian property)
lower() (glotaran.utils.ipython.MarkdownStr method)
lstrip() (glotaran.utils.ipython.MarkdownStr method)
M
main() (glotaran.cli.main.Cli method)
make_context() (glotaran.cli.main.Cli method)
make_parser() (glotaran.cli.main.Cli method)
maketrans() (glotaran.utils.ipython.MarkdownStr method)
markdown() (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel method)
(glotaran.model.base_model.Model method)
(glotaran.parameter.parameter_group.ParameterGroup method)
(glotaran.project.result.Result method)
(glotaran.project.scheme.Scheme method)
MarkdownStr (class in glotaran.utils.ipython)
matrices (glotaran.analysis.problem.Problem property)
(glotaran.analysis.problem_grouped.GroupedProblem property)
(glotaran.analysis.problem_ungrouped.UngroupedProblem property)
matrix (glotaran.analysis.util.LabelAndMatrix attribute)
(glotaran.builtin.models.kinetic_image.k_matrix.KMatrix property)
matrix_as_markdown() (glotaran.builtin.models.kinetic_image.k_matrix.KMatrix method)
MAX (glotaran.parameter.parameter.Keys attribute)
maximum (glotaran.parameter.parameter.Parameter property)
maximum_number_function_evaluations (glotaran.project.scheme.Scheme attribute)
Megacomplex (class in glotaran.model.megacomplex)
megacomplex (glotaran.builtin.models.kinetic_image.kinetic_image_dataset_descriptor.KineticImageDatasetDescriptor property)
(glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel property)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_dataset_descriptor.KineticSpectrumDatasetDescriptor property)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel property)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel property)
(glotaran.model.dataset_descriptor.DatasetDescriptor property)
megacomplex_scale (glotaran.builtin.models.kinetic_image.kinetic_image_dataset_descriptor.KineticImageDatasetDescriptor property)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_dataset_descriptor.KineticSpectrumDatasetDescriptor property)
(glotaran.model.dataset_descriptor.DatasetDescriptor property)
methods_differ_from_baseclass() (in module glotaran.plugin_system.base_registry)
methods_differ_from_baseclass_table() (in module glotaran.plugin_system.base_registry)
MIN (glotaran.parameter.parameter.Keys attribute)
minimum (glotaran.parameter.parameter.Parameter property)
Model (class in glotaran.model.base_model)
model (glotaran.analysis.problem.Problem property)
(glotaran.analysis.problem_grouped.GroupedProblem property)
(glotaran.analysis.problem_ungrouped.UngroupedProblem property)
(glotaran.project.result.Result property)
(glotaran.project.scheme.Scheme attribute)
model() (in module glotaran.model.decorator)
model_attribute() (in module glotaran.model.attribute)
model_attribute_typed() (in module glotaran.model.attribute)
model_axis (glotaran.analysis.problem.UngroupedProblemDescriptor attribute)
model_dimension (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel attribute)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel attribute)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel attribute)
model_dispersion_with_wavenumber (glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralGaussian property)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralMultiGaussian property)
model_interval (glotaran.model.weight.Weight property)
model_plugin_table() (in module glotaran.plugin_system.model_registration)
model_type (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel property)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel property)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel property)
(glotaran.model.base_model.Model property)
ModelProperty (class in glotaran.model.property)
module
glotaran
glotaran.analysis
glotaran.analysis.nnls
glotaran.analysis.optimize
glotaran.analysis.problem
glotaran.analysis.problem_grouped
glotaran.analysis.problem_ungrouped
glotaran.analysis.simulation
glotaran.analysis.util
glotaran.analysis.variable_projection
glotaran.builtin
glotaran.builtin.io
glotaran.builtin.io.ascii
glotaran.builtin.io.ascii.wavelength_time_explicit_file
glotaran.builtin.io.csv
glotaran.builtin.io.csv.csv
glotaran.builtin.io.folder
glotaran.builtin.io.folder.folder_plugin
glotaran.builtin.io.netCDF
glotaran.builtin.io.netCDF.netCDF
glotaran.builtin.io.sdt
glotaran.builtin.io.sdt.sdt_file_reader
glotaran.builtin.io.yml
glotaran.builtin.io.yml.sanatize
glotaran.builtin.io.yml.yml
glotaran.builtin.models
glotaran.builtin.models.kinetic_image
glotaran.builtin.models.kinetic_image.initial_concentration
glotaran.builtin.models.kinetic_image.irf
glotaran.builtin.models.kinetic_image.k_matrix
glotaran.builtin.models.kinetic_image.kinetic_baseline_megacomplex
glotaran.builtin.models.kinetic_image.kinetic_decay_megacomplex
glotaran.builtin.models.kinetic_image.kinetic_image_dataset_descriptor
glotaran.builtin.models.kinetic_image.kinetic_image_model
glotaran.builtin.models.kinetic_image.kinetic_image_result
glotaran.builtin.models.kinetic_spectrum
glotaran.builtin.models.kinetic_spectrum.coherent_artifact_megacomplex
glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_dataset_descriptor
glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model
glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_result
glotaran.builtin.models.kinetic_spectrum.spectral_constraints
glotaran.builtin.models.kinetic_spectrum.spectral_irf
glotaran.builtin.models.kinetic_spectrum.spectral_matrix
glotaran.builtin.models.kinetic_spectrum.spectral_penalties
glotaran.builtin.models.kinetic_spectrum.spectral_relations
glotaran.builtin.models.kinetic_spectrum.spectral_shape
glotaran.builtin.models.spectral
glotaran.builtin.models.spectral.shape
glotaran.builtin.models.spectral.spectral_megacomplex
glotaran.builtin.models.spectral.spectral_model
glotaran.builtin.models.spectral.spectral_result
glotaran.cli
glotaran.cli.commands
glotaran.cli.commands.explore
glotaran.cli.commands.export
glotaran.cli.commands.optimize
glotaran.cli.commands.pluginlist
glotaran.cli.commands.print
glotaran.cli.commands.util
glotaran.cli.commands.validate
glotaran.cli.main
glotaran.deprecation
glotaran.deprecation.deprecation_utils
glotaran.deprecation.modules
glotaran.deprecation.modules.glotaran_root
glotaran.examples
glotaran.examples.sequential
glotaran.io
glotaran.io.interface
glotaran.io.prepare_dataset
glotaran.model
glotaran.model.attribute
glotaran.model.base_model
glotaran.model.dataset_descriptor
glotaran.model.decorator
glotaran.model.megacomplex
glotaran.model.property
glotaran.model.util
glotaran.model.weight
glotaran.parameter
glotaran.parameter.parameter
glotaran.parameter.parameter_group
glotaran.plugin_system
glotaran.plugin_system.base_registry
glotaran.plugin_system.data_io_registration
glotaran.plugin_system.io_plugin_utils
glotaran.plugin_system.model_registration
glotaran.plugin_system.project_io_registration
glotaran.project
glotaran.project.result
glotaran.project.scheme
glotaran.utils
glotaran.utils.ipython
module_attribute() (in module glotaran.deprecation.deprecation_utils)
mprint() (glotaran.builtin.models.kinetic_image.initial_concentration.InitialConcentration method)
(glotaran.builtin.models.kinetic_image.irf.IrfGaussian method)
(glotaran.builtin.models.kinetic_image.irf.IrfMeasured method)
(glotaran.builtin.models.kinetic_image.irf.IrfMultiGaussian method)
(glotaran.builtin.models.kinetic_image.k_matrix.KMatrix method)
(glotaran.builtin.models.kinetic_image.kinetic_baseline_megacomplex.KineticBaselineMegacomplex method)
(glotaran.builtin.models.kinetic_image.kinetic_decay_megacomplex.KineticDecayMegacomplex method)
(glotaran.builtin.models.kinetic_image.kinetic_image_dataset_descriptor.KineticImageDatasetDescriptor method)
(glotaran.builtin.models.kinetic_spectrum.coherent_artifact_megacomplex.CoherentArtifactMegacomplex method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_dataset_descriptor.KineticSpectrumDatasetDescriptor method)
(glotaran.builtin.models.kinetic_spectrum.spectral_constraints.OnlyConstraint method)
(glotaran.builtin.models.kinetic_spectrum.spectral_constraints.ZeroConstraint method)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralGaussian method)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralMultiGaussian method)
(glotaran.builtin.models.kinetic_spectrum.spectral_penalties.EqualAreaPenalty method)
(glotaran.builtin.models.kinetic_spectrum.spectral_relations.SpectralRelation method)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeGaussian method)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeOne method)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeZero method)
(glotaran.builtin.models.spectral.shape.SpectralShapeOne method)
(glotaran.builtin.models.spectral.shape.SpectralShapeSkewedGaussian method)
(glotaran.builtin.models.spectral.shape.SpectralShapeZero method)
(glotaran.builtin.models.spectral.spectral_megacomplex.SpectralMegacomplex method)
(glotaran.model.dataset_descriptor.DatasetDescriptor method)
(glotaran.model.megacomplex.Megacomplex method)
(glotaran.model.weight.Weight method)
N
name (glotaran.cli.commands.util.ValOrRangeOrList attribute)
(glotaran.cli.main.Cli attribute)
NetCDFDataIo (class in glotaran.builtin.io.netCDF.netCDF)
NON_NEG (glotaran.parameter.parameter.Keys attribute)
non_negative (glotaran.parameter.parameter.Parameter property)
non_negative_least_squares (glotaran.project.scheme.Scheme attribute)
normalize (glotaran.builtin.models.kinetic_image.irf.IrfGaussian property)
(glotaran.builtin.models.kinetic_image.irf.IrfMultiGaussian property)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralGaussian property)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralMultiGaussian property)
normalized() (glotaran.builtin.models.kinetic_image.initial_concentration.InitialConcentration method)
not_implemented_to_value_error() (in module glotaran.plugin_system.io_plugin_utils)
number_of_data_points (glotaran.project.result.Result attribute)
number_of_function_evaluations (glotaran.project.result.Result attribute)
number_of_jacobian_evaluations (glotaran.project.result.Result attribute)
number_of_variables (glotaran.project.result.Result attribute)
O
OnlyConstraint (class in glotaran.builtin.models.kinetic_spectrum.spectral_constraints)
optimality (glotaran.project.result.Result attribute)
optimization_method (glotaran.project.scheme.Scheme attribute)
optimize() (in module glotaran.analysis.optimize)
optimize_cmd() (in module glotaran.cli.commands.optimize)
optimize_problem() (in module glotaran.analysis.optimize)
optimized_parameters (glotaran.project.result.Result attribute)
order (glotaran.builtin.models.kinetic_spectrum.coherent_artifact_megacomplex.CoherentArtifactMegacomplex property)
P
Parameter (class in glotaran.parameter.parameter)
parameter (glotaran.builtin.models.kinetic_spectrum.spectral_penalties.EqualAreaPenalty property)
(glotaran.builtin.models.kinetic_spectrum.spectral_relations.SpectralRelation property)
parameter() (glotaran.builtin.models.kinetic_image.irf.IrfGaussian method)
(glotaran.builtin.models.kinetic_image.irf.IrfMultiGaussian method)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralGaussian method)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralMultiGaussian method)
parameter_format (glotaran.project.scheme.SavingOptions attribute)
parameter_history (glotaran.analysis.problem.Problem property)
(glotaran.analysis.problem_grouped.GroupedProblem property)
(glotaran.analysis.problem_ungrouped.UngroupedProblem property)
ParameterGroup (class in glotaran.parameter.parameter_group)
parameters (glotaran.analysis.problem.Problem property)
(glotaran.analysis.problem_grouped.GroupedProblem property)
(glotaran.analysis.problem_ungrouped.UngroupedProblem property)
(glotaran.builtin.models.kinetic_image.initial_concentration.InitialConcentration property)
(glotaran.project.scheme.Scheme attribute)
params (glotaran.cli.main.Cli attribute)
parse_args() (glotaran.cli.main.Cli method)
parse_version() (in module glotaran.deprecation.deprecation_utils)
partition() (glotaran.utils.ipython.MarkdownStr method)
plugin_list_cmd() (in module glotaran.cli.commands.pluginlist)
pop() (glotaran.parameter.parameter_group.ParameterGroup method)
popitem() (glotaran.parameter.parameter_group.ParameterGroup method)
prepare_time_trace_dataset() (in module glotaran.io.prepare_dataset)
print_cmd() (in module glotaran.cli.commands.print)
Problem (class in glotaran.analysis.problem)
problem_list() (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel method)
(glotaran.model.base_model.Model method)
(glotaran.project.scheme.Scheme method)
ProblemGroup (class in glotaran.analysis.problem)
project_io_plugin_table() (in module glotaran.plugin_system.project_io_registration)
ProjectIoInterface (class in glotaran.io.interface)
protect_from_overwrite() (in module glotaran.plugin_system.io_plugin_utils)
R
rates() (glotaran.builtin.models.kinetic_image.k_matrix.KMatrix method)
read() (glotaran.builtin.io.ascii.wavelength_time_explicit_file.ExplicitFile method)
(glotaran.builtin.io.ascii.wavelength_time_explicit_file.TimeExplicitFile method)
(glotaran.builtin.io.ascii.wavelength_time_explicit_file.WavelengthExplicitFile method)
read_model_from_yaml() (in module glotaran.deprecation.modules.glotaran_root)
read_model_from_yaml_file() (in module glotaran.deprecation.modules.glotaran_root)
read_parameters_from_csv_file() (in module glotaran.deprecation.modules.glotaran_root)
read_parameters_from_yaml() (in module glotaran.deprecation.modules.glotaran_root)
read_parameters_from_yaml_file() (in module glotaran.deprecation.modules.glotaran_root)
reduce_matrix() (in module glotaran.analysis.util)
reduced() (glotaran.builtin.models.kinetic_image.k_matrix.KMatrix method)
reduced_chi_square (glotaran.project.result.Result attribute)
reduced_clp_labels (glotaran.analysis.problem.Problem property)
(glotaran.analysis.problem_grouped.GroupedProblem property)
(glotaran.analysis.problem_ungrouped.UngroupedProblem property)
reduced_clps (glotaran.analysis.problem.Problem property)
(glotaran.analysis.problem_grouped.GroupedProblem property)
(glotaran.analysis.problem_ungrouped.UngroupedProblem property)
reduced_matrices (glotaran.analysis.problem.Problem property)
(glotaran.analysis.problem_grouped.GroupedProblem property)
(glotaran.analysis.problem_ungrouped.UngroupedProblem property)
register_data_io() (in module glotaran.plugin_system.data_io_registration)
register_model() (in module glotaran.plugin_system.model_registration)
register_project_io() (in module glotaran.plugin_system.project_io_registration)
registered_plugins() (in module glotaran.plugin_system.base_registry)
replace() (glotaran.utils.ipython.MarkdownStr method)
report (glotaran.project.scheme.SavingOptions attribute)
reset() (glotaran.analysis.problem.Problem method)
(glotaran.analysis.problem_grouped.GroupedProblem method)
(glotaran.analysis.problem_ungrouped.UngroupedProblem method)
residual_nnls() (in module glotaran.analysis.nnls)
residual_variable_projection() (in module glotaran.analysis.variable_projection)
residuals (glotaran.analysis.problem.Problem property)
(glotaran.analysis.problem_grouped.GroupedProblem property)
(glotaran.analysis.problem_ungrouped.UngroupedProblem property)
resolve_command() (glotaran.cli.main.Cli method)
Result (class in glotaran.project.result)
result_callback() (glotaran.cli.main.Cli method)
result_path (glotaran.project.scheme.Scheme attribute)
resultcallback() (glotaran.cli.main.Cli method)
retrieve_clp_function (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel attribute)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel attribute)
retrieve_clp_function() (glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
retrieve_decay_associated_data() (in module glotaran.builtin.models.kinetic_image.kinetic_image_result)
retrieve_irf() (in module glotaran.builtin.models.kinetic_image.kinetic_image_result)
retrieve_related_clps() (in module glotaran.builtin.models.kinetic_spectrum.spectral_relations)
retrieve_species_associated_data() (in module glotaran.builtin.models.kinetic_image.kinetic_image_result)
retrieve_spectral_clps() (in module glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model)
retrieve_spectral_data() (in module glotaran.builtin.models.spectral.spectral_result)
rfind() (glotaran.utils.ipython.MarkdownStr method)
rindex() (glotaran.utils.ipython.MarkdownStr method)
rjust() (glotaran.utils.ipython.MarkdownStr method)
root_group (glotaran.parameter.parameter_group.ParameterGroup property)
root_mean_square_error (glotaran.project.result.Result attribute)
rpartition() (glotaran.utils.ipython.MarkdownStr method)
rsplit() (glotaran.utils.ipython.MarkdownStr method)
rstrip() (glotaran.utils.ipython.MarkdownStr method)
S
sanitize_dict_keys() (in module glotaran.builtin.io.yml.sanatize)
sanitize_dict_values() (in module glotaran.builtin.io.yml.sanatize)
sanitize_list_with_broken_tuples() (in module glotaran.builtin.io.yml.sanatize)
sanitize_yaml() (in module glotaran.builtin.io.yml.sanatize)
save() (glotaran.project.result.Result method)
save_dataset() (glotaran.builtin.io.ascii.wavelength_time_explicit_file.AsciiDataIo method)
(glotaran.builtin.io.netCDF.netCDF.NetCDFDataIo method)
(glotaran.builtin.io.sdt.sdt_file_reader.SdtDataIo method)
(glotaran.io.interface.DataIoInterface method)
(in module glotaran.plugin_system.data_io_registration)
save_model() (glotaran.builtin.io.csv.csv.CsvProjectIo method)
(glotaran.builtin.io.folder.folder_plugin.FolderProjectIo method)
(glotaran.builtin.io.yml.yml.YmlProjectIo method)
(glotaran.io.interface.ProjectIoInterface method)
(in module glotaran.plugin_system.project_io_registration)
save_parameters() (glotaran.builtin.io.csv.csv.CsvProjectIo method)
(glotaran.builtin.io.folder.folder_plugin.FolderProjectIo method)
(glotaran.builtin.io.yml.yml.YmlProjectIo method)
(glotaran.io.interface.ProjectIoInterface method)
(in module glotaran.plugin_system.project_io_registration)
save_parameters_for_history() (glotaran.analysis.problem.Problem method)
(glotaran.analysis.problem_grouped.GroupedProblem method)
(glotaran.analysis.problem_ungrouped.UngroupedProblem method)
save_result() (glotaran.builtin.io.csv.csv.CsvProjectIo method)
(glotaran.builtin.io.folder.folder_plugin.FolderProjectIo method)
(glotaran.builtin.io.yml.yml.YmlProjectIo method)
(glotaran.io.interface.ProjectIoInterface method)
(in module glotaran.plugin_system.project_io_registration)
save_scheme() (glotaran.builtin.io.csv.csv.CsvProjectIo method)
(glotaran.builtin.io.folder.folder_plugin.FolderProjectIo method)
(glotaran.builtin.io.yml.yml.YmlProjectIo method)
(glotaran.io.interface.ProjectIoInterface method)
(in module glotaran.plugin_system.project_io_registration)
saving (glotaran.project.scheme.Scheme attribute)
SavingOptions (class in glotaran.project.scheme)
scale (glotaran.builtin.models.kinetic_image.irf.IrfGaussian property)
(glotaran.builtin.models.kinetic_image.irf.IrfMultiGaussian property)
(glotaran.builtin.models.kinetic_image.kinetic_image_dataset_descriptor.KineticImageDatasetDescriptor property)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_dataset_descriptor.KineticSpectrumDatasetDescriptor property)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralGaussian property)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralMultiGaussian property)
(glotaran.model.dataset_descriptor.DatasetDescriptor property)
Scheme (class in glotaran.project.scheme)
scheme (glotaran.analysis.problem.Problem property)
(glotaran.analysis.problem_grouped.GroupedProblem property)
(glotaran.analysis.problem_ungrouped.UngroupedProblem property)
(glotaran.project.result.Result attribute)
SdtDataIo (class in glotaran.builtin.io.sdt.sdt_file_reader)
select_data() (in module glotaran.cli.commands.util)
select_name() (in module glotaran.cli.commands.util)
set_data_plugin() (in module glotaran.plugin_system.data_io_registration)
set_dataset() (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel method)
set_explicit_axis() (glotaran.builtin.io.ascii.wavelength_time_explicit_file.ExplicitFile method)
(glotaran.builtin.io.ascii.wavelength_time_explicit_file.TimeExplicitFile method)
(glotaran.builtin.io.ascii.wavelength_time_explicit_file.WavelengthExplicitFile method)
set_from_group() (glotaran.parameter.parameter.Parameter method)
set_from_label_and_value_arrays() (glotaran.parameter.parameter_group.ParameterGroup method)
set_initial_concentration() (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
set_irf() (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
set_k_matrix() (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
set_megacomplex() (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel method)
set_model_plugin() (in module glotaran.plugin_system.model_registration)
set_plugin() (in module glotaran.plugin_system.base_registry)
set_project_plugin() (in module glotaran.plugin_system.project_io_registration)
set_shape() (glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel method)
set_value_from_optimization() (glotaran.parameter.parameter.Parameter method)
setdefault() (glotaran.parameter.parameter_group.ParameterGroup method)
setter() (glotaran.model.property.ModelProperty method)
shape (glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_dataset_descriptor.KineticSpectrumDatasetDescriptor property)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel property)
(glotaran.builtin.models.spectral.spectral_megacomplex.SpectralMegacomplex property)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel property)
shell_complete() (glotaran.cli.commands.util.ValOrRangeOrList method)
(glotaran.cli.main.Cli method)
shift (glotaran.builtin.models.kinetic_image.irf.IrfGaussian property)
(glotaran.builtin.models.kinetic_image.irf.IrfMultiGaussian property)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralGaussian property)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralMultiGaussian property)
show_data_io_method_help() (in module glotaran.plugin_system.data_io_registration)
show_method_help() (in module glotaran.plugin_system.base_registry)
show_project_io_method_help() (in module glotaran.plugin_system.project_io_registration)
signature_analysis() (in module glotaran.cli.commands.util)
simulate() (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel method)
(glotaran.model.base_model.Model method)
(in module glotaran.analysis.simulation)
skewness (glotaran.builtin.models.spectral.shape.SpectralShapeSkewedGaussian property)
source (glotaran.builtin.models.kinetic_spectrum.spectral_penalties.EqualAreaPenalty property)
source_intervals (glotaran.builtin.models.kinetic_spectrum.spectral_penalties.EqualAreaPenalty property)
spectral_constraints (glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel property)
spectral_matrix() (in module glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model)
spectral_relations (glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel property)
SpectralConstraint (class in glotaran.builtin.models.kinetic_spectrum.spectral_constraints)
SpectralMegacomplex (class in glotaran.builtin.models.spectral.spectral_megacomplex)
SpectralModel (class in glotaran.builtin.models.spectral.spectral_model)
SpectralRelation (class in glotaran.builtin.models.kinetic_spectrum.spectral_relations)
SpectralShape (class in glotaran.builtin.models.kinetic_spectrum.spectral_shape)
(class in glotaran.builtin.models.spectral.shape)
SpectralShapeGaussian (class in glotaran.builtin.models.kinetic_spectrum.spectral_shape)
SpectralShapeOne (class in glotaran.builtin.models.kinetic_spectrum.spectral_shape)
(class in glotaran.builtin.models.spectral.shape)
SpectralShapeSkewedGaussian (class in glotaran.builtin.models.spectral.shape)
SpectralShapeZero (class in glotaran.builtin.models.kinetic_spectrum.spectral_shape)
(class in glotaran.builtin.models.spectral.shape)
split() (glotaran.utils.ipython.MarkdownStr method)
split_envvar_value() (glotaran.cli.commands.util.ValOrRangeOrList method)
splitlines() (glotaran.utils.ipython.MarkdownStr method)
standard_error (glotaran.parameter.parameter.Parameter property)
startswith() (glotaran.utils.ipython.MarkdownStr method)
string_to_tuple() (in module glotaran.builtin.io.yml.sanatize)
strip() (glotaran.utils.ipython.MarkdownStr method)
success (glotaran.project.result.Result attribute)
swapcase() (glotaran.utils.ipython.MarkdownStr method)
T
target (glotaran.builtin.models.kinetic_spectrum.spectral_penalties.EqualAreaPenalty property)
(glotaran.builtin.models.kinetic_spectrum.spectral_relations.SpectralRelation property)
target_intervals (glotaran.builtin.models.kinetic_spectrum.spectral_penalties.EqualAreaPenalty property)
termination_reason (glotaran.project.result.Result attribute)
time_explicit (glotaran.builtin.io.ascii.wavelength_time_explicit_file.DataFileType attribute)
TimeExplicitFile (class in glotaran.builtin.io.ascii.wavelength_time_explicit_file)
times() (glotaran.builtin.io.ascii.wavelength_time_explicit_file.WavelengthExplicitFile method)
title() (glotaran.utils.ipython.MarkdownStr method)
to_csv() (glotaran.parameter.parameter_group.ParameterGroup method)
to_dataframe() (glotaran.parameter.parameter_group.ParameterGroup method)
to_info_dict() (glotaran.cli.commands.util.ValOrRangeOrList method)
(glotaran.cli.main.Cli method)
transformed_expression (glotaran.parameter.parameter.Parameter property)
translate() (glotaran.utils.ipython.MarkdownStr method)
type (glotaran.builtin.models.kinetic_image.irf.IrfGaussian property)
(glotaran.builtin.models.kinetic_image.irf.IrfMeasured property)
(glotaran.builtin.models.kinetic_image.irf.IrfMultiGaussian property)
(glotaran.builtin.models.kinetic_image.kinetic_baseline_megacomplex.KineticBaselineMegacomplex property)
(glotaran.builtin.models.kinetic_image.kinetic_decay_megacomplex.KineticDecayMegacomplex property)
(glotaran.builtin.models.kinetic_spectrum.coherent_artifact_megacomplex.CoherentArtifactMegacomplex property)
(glotaran.builtin.models.kinetic_spectrum.spectral_constraints.OnlyConstraint property)
(glotaran.builtin.models.kinetic_spectrum.spectral_constraints.ZeroConstraint property)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralGaussian property)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralMultiGaussian property)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeGaussian property)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeOne property)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeZero property)
(glotaran.builtin.models.spectral.shape.SpectralShapeOne property)
(glotaran.builtin.models.spectral.shape.SpectralShapeSkewedGaussian property)
(glotaran.builtin.models.spectral.shape.SpectralShapeZero property)
(glotaran.builtin.models.spectral.spectral_megacomplex.SpectralMegacomplex property)
(glotaran.model.megacomplex.Megacomplex property)
U
UngroupedProblem (class in glotaran.analysis.problem_ungrouped)
UngroupedProblemDescriptor (class in glotaran.analysis.problem)
update() (glotaran.parameter.parameter_group.ParameterGroup method)
update_parameter_expression() (glotaran.parameter.parameter_group.ParameterGroup method)
upper() (glotaran.utils.ipython.MarkdownStr method)
V
valid() (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel method)
(glotaran.model.base_model.Model method)
(glotaran.project.scheme.Scheme method)
valid_label() (glotaran.parameter.parameter.Parameter class method)
validate() (glotaran.builtin.models.kinetic_image.initial_concentration.InitialConcentration method)
(glotaran.builtin.models.kinetic_image.irf.IrfGaussian method)
(glotaran.builtin.models.kinetic_image.irf.IrfMeasured method)
(glotaran.builtin.models.kinetic_image.irf.IrfMultiGaussian method)
(glotaran.builtin.models.kinetic_image.k_matrix.KMatrix method)
(glotaran.builtin.models.kinetic_image.kinetic_baseline_megacomplex.KineticBaselineMegacomplex method)
(glotaran.builtin.models.kinetic_image.kinetic_decay_megacomplex.KineticDecayMegacomplex method)
(glotaran.builtin.models.kinetic_image.kinetic_image_dataset_descriptor.KineticImageDatasetDescriptor method)
(glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel method)
(glotaran.builtin.models.kinetic_spectrum.coherent_artifact_megacomplex.CoherentArtifactMegacomplex method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_dataset_descriptor.KineticSpectrumDatasetDescriptor method)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel method)
(glotaran.builtin.models.kinetic_spectrum.spectral_constraints.OnlyConstraint method)
(glotaran.builtin.models.kinetic_spectrum.spectral_constraints.ZeroConstraint method)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralGaussian method)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralMultiGaussian method)
(glotaran.builtin.models.kinetic_spectrum.spectral_penalties.EqualAreaPenalty method)
(glotaran.builtin.models.kinetic_spectrum.spectral_relations.SpectralRelation method)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeGaussian method)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeOne method)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeZero method)
(glotaran.builtin.models.spectral.shape.SpectralShapeOne method)
(glotaran.builtin.models.spectral.shape.SpectralShapeSkewedGaussian method)
(glotaran.builtin.models.spectral.shape.SpectralShapeZero method)
(glotaran.builtin.models.spectral.spectral_megacomplex.SpectralMegacomplex method)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel method)
(glotaran.model.base_model.Model method)
(glotaran.model.dataset_descriptor.DatasetDescriptor method)
(glotaran.model.megacomplex.Megacomplex method)
(glotaran.model.property.ModelProperty method)
(glotaran.model.weight.Weight method)
(glotaran.project.scheme.Scheme method)
validate_cmd() (in module glotaran.cli.commands.validate)
ValOrRangeOrList (class in glotaran.cli.commands.util)
value (glotaran.model.weight.Weight property)
(glotaran.parameter.parameter.Parameter property)
values() (glotaran.parameter.parameter_group.ParameterGroup method)
VARY (glotaran.parameter.parameter.Keys attribute)
vary (glotaran.parameter.parameter.Parameter property)
W
warn_deprecated() (in module glotaran.deprecation.deprecation_utils)
wavelength_explicit (glotaran.builtin.io.ascii.wavelength_time_explicit_file.DataFileType attribute)
WavelengthExplicitFile (class in glotaran.builtin.io.ascii.wavelength_time_explicit_file)
wavelengths() (glotaran.builtin.io.ascii.wavelength_time_explicit_file.WavelengthExplicitFile method)
Weight (class in glotaran.model.weight)
weight (glotaran.analysis.problem.ProblemGroup attribute)
(glotaran.analysis.problem.UngroupedProblemDescriptor attribute)
(glotaran.builtin.models.kinetic_spectrum.spectral_penalties.EqualAreaPenalty property)
weighted_residuals (glotaran.analysis.problem.Problem property)
(glotaran.analysis.problem_grouped.GroupedProblem property)
(glotaran.analysis.problem_ungrouped.UngroupedProblem property)
weights (glotaran.builtin.models.kinetic_image.kinetic_image_model.KineticImageModel property)
(glotaran.builtin.models.kinetic_spectrum.kinetic_spectrum_model.KineticSpectrumModel property)
(glotaran.builtin.models.spectral.spectral_model.SpectralModel property)
width (glotaran.builtin.models.kinetic_image.irf.IrfGaussian property)
(glotaran.builtin.models.kinetic_image.irf.IrfMultiGaussian property)
(glotaran.builtin.models.kinetic_spectrum.coherent_artifact_megacomplex.CoherentArtifactMegacomplex property)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralGaussian property)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralMultiGaussian property)
(glotaran.builtin.models.kinetic_spectrum.spectral_shape.SpectralShapeGaussian property)
(glotaran.builtin.models.spectral.shape.SpectralShapeSkewedGaussian property)
width_dispersion (glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralGaussian property)
(glotaran.builtin.models.kinetic_spectrum.spectral_irf.IrfSpectralMultiGaussian property)
wrap_func_as_method() (in module glotaran.model.util)
write() (glotaran.builtin.io.ascii.wavelength_time_explicit_file.ExplicitFile method)
(glotaran.builtin.io.ascii.wavelength_time_explicit_file.TimeExplicitFile method)
(glotaran.builtin.io.ascii.wavelength_time_explicit_file.WavelengthExplicitFile method)
write_data() (in module glotaran.cli.commands.util)
X
xtol (glotaran.project.scheme.Scheme attribute)
Y
YmlProjectIo (class in glotaran.builtin.io.yml.yml)
Z
ZeroConstraint (class in glotaran.builtin.models.kinetic_spectrum.spectral_constraints)
zfill() (glotaran.utils.ipython.MarkdownStr method)
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