pyglotaran
v0.5.0
Contents:
Introduction
Installation
Quickstart/Cheat-Sheet
Changelog
Authors
User Documentation:
Overview
Data IO
Plotting
Modelling
Parameter
Optimizing
Plugins
Command-line Interface
Developer Documentation:
Contributing
API Documentation
Plugin development
pyglotaran
»
Index
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Index
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C
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I
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Y
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Z
Symbols
--data <data>
glotaran-optimize command line option
--dataformat <dataformat>
glotaran-optimize command line option
--model_file <model_file>
glotaran-optimize command line option
glotaran-print command line option
glotaran-validate command line option
--nfev <nfev>
glotaran-optimize command line option
--nnls
glotaran-optimize command line option
--out <out>
glotaran-optimize command line option
--outformat <outformat>
glotaran-optimize command line option
--parameters_file <parameters_file>
glotaran-optimize command line option
glotaran-print command line option
glotaran-validate command line option
--version
glotaran command line option
--yes
glotaran-optimize command line option
-d
glotaran-optimize command line option
-dfmt
glotaran-optimize command line option
-m
glotaran-optimize command line option
glotaran-print command line option
glotaran-validate command line option
-n
glotaran-optimize command line option
-o
glotaran-optimize command line option
-ofmt
glotaran-optimize command line option
-p
glotaran-optimize command line option
glotaran-print command line option
glotaran-validate command line option
-y
glotaran-optimize command line option
A
a_matrix() (glotaran.builtin.megacomplexes.decay.k_matrix.KMatrix method)
a_matrix_as_markdown() (glotaran.builtin.megacomplexes.decay.k_matrix.KMatrix method)
a_matrix_non_unibranch() (glotaran.builtin.megacomplexes.decay.k_matrix.KMatrix method)
a_matrix_unibranch() (glotaran.builtin.megacomplexes.decay.k_matrix.KMatrix 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_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_svd (glotaran.project.scheme.Scheme attribute)
add_svd_to_dataset() (in module glotaran.io.prepare_dataset)
add_type() (glotaran.builtin.megacomplexes.decay.irf.Irf class method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShape class method)
(glotaran.model.constraint.Constraint class method)
additional_penalty (glotaran.analysis.optimization_group.OptimizationGroup property)
(glotaran.project.result.Result attribute)
all() (glotaran.parameter.parameter_group.ParameterGroup method)
amplitude (glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeGaussian property)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeSkewedGaussian property)
append() (glotaran.parameter.parameter_history.ParameterHistory method)
applies() (glotaran.model.clp_penalties.EqualAreaPenalty method)
(glotaran.model.constraint.OnlyConstraint method)
(glotaran.model.constraint.ZeroConstraint method)
(glotaran.model.interval_property.IntervalProperty method)
(glotaran.model.relation.Relation method)
apply_constraints() (in module glotaran.analysis.util)
apply_relations() (in module glotaran.analysis.util)
apply_spectral_penalties() (in module glotaran.model.clp_penalties)
apply_weight() (in module glotaran.analysis.util)
arity (glotaran.cli.commands.util.ValOrRangeOrList attribute)
as_dict() (glotaran.builtin.megacomplexes.baseline.baseline_megacomplex.BaselineMegacomplex method)
(glotaran.builtin.megacomplexes.coherent_artifact.coherent_artifact_megacomplex.CoherentArtifactMegacomplex method)
(glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex.DampedOscillationMegacomplex method)
(glotaran.builtin.megacomplexes.decay.decay_megacomplex.DecayMegacomplex method)
(glotaran.builtin.megacomplexes.decay.initial_concentration.InitialConcentration method)
(glotaran.builtin.megacomplexes.decay.irf.IrfGaussian method)
(glotaran.builtin.megacomplexes.decay.irf.IrfMeasured method)
(glotaran.builtin.megacomplexes.decay.irf.IrfMultiGaussian method)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralGaussian method)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralMultiGaussian method)
(glotaran.builtin.megacomplexes.decay.k_matrix.KMatrix method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeGaussian method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeOne method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeSkewedGaussian method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeZero method)
(glotaran.builtin.megacomplexes.spectral.spectral_megacomplex.SpectralMegacomplex method)
(glotaran.model.clp_penalties.EqualAreaPenalty method)
(glotaran.model.constraint.OnlyConstraint method)
(glotaran.model.constraint.ZeroConstraint method)
(glotaran.model.interval_property.IntervalProperty method)
(glotaran.model.model.Model method)
(glotaran.model.relation.Relation method)
(glotaran.model.weight.Weight method)
(glotaran.parameter.parameter.Parameter method)
AsciiDataIo (class in glotaran.builtin.io.ascii.wavelength_time_explicit_file)
asdict() (in module glotaran.project.dataclass_helpers)
axis (glotaran.analysis.optimization_group_calculator_linked.DatasetIndexModel attribute)
B
backsweep (glotaran.builtin.megacomplexes.decay.irf.IrfGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfMultiGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralMultiGaussian property)
backsweep_period (glotaran.builtin.megacomplexes.decay.irf.IrfGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfMultiGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralMultiGaussian property)
bag (glotaran.analysis.optimization_group_calculator_linked.OptimizationGroupCalculatorLinked property)
BaselineMegacomplex (class in glotaran.builtin.megacomplexes.baseline.baseline_megacomplex)
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.megacomplexes.decay.irf.IrfGaussian method)
(glotaran.builtin.megacomplexes.decay.irf.IrfMultiGaussian method)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralGaussian method)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralMultiGaussian method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeGaussian method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeOne method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeSkewedGaussian method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeZero method)
calculate_clp_penalties() (in module glotaran.analysis.util)
calculate_damped_oscillation_matrix_gaussian_irf() (in module glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex)
calculate_damped_oscillation_matrix_no_irf() (in module glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex)
calculate_decay_matrix_gaussian_irf() (in module glotaran.builtin.megacomplexes.decay.util)
calculate_decay_matrix_no_irf() (in module glotaran.builtin.megacomplexes.decay.util)
calculate_dispersion() (glotaran.builtin.megacomplexes.decay.irf.IrfSpectralGaussian method)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralMultiGaussian method)
calculate_full_penalty() (glotaran.analysis.optimization_group_calculator.OptimizationGroupCalculator method)
(glotaran.analysis.optimization_group_calculator_linked.OptimizationGroupCalculatorLinked method)
(glotaran.analysis.optimization_group_calculator_unlinked.OptimizationGroupCalculatorUnlinked method)
calculate_index_dependent_matrices() (glotaran.analysis.optimization_group_calculator_linked.OptimizationGroupCalculatorLinked method)
calculate_index_independent_matrices() (glotaran.analysis.optimization_group_calculator_linked.OptimizationGroupCalculatorLinked method)
calculate_matrices() (glotaran.analysis.optimization_group_calculator.OptimizationGroupCalculator method)
(glotaran.analysis.optimization_group_calculator_linked.OptimizationGroupCalculatorLinked method)
(glotaran.analysis.optimization_group_calculator_unlinked.OptimizationGroupCalculatorUnlinked method)
calculate_matrix() (glotaran.builtin.megacomplexes.baseline.baseline_megacomplex.BaselineMegacomplex method)
(glotaran.builtin.megacomplexes.coherent_artifact.coherent_artifact_megacomplex.CoherentArtifactMegacomplex method)
(glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex.DampedOscillationMegacomplex method)
(glotaran.builtin.megacomplexes.decay.decay_megacomplex.DecayMegacomplex method)
(glotaran.builtin.megacomplexes.spectral.spectral_megacomplex.SpectralMegacomplex method)
(in module glotaran.analysis.util)
calculate_residual() (glotaran.analysis.optimization_group_calculator.OptimizationGroupCalculator method)
(glotaran.analysis.optimization_group_calculator_linked.OptimizationGroupCalculatorLinked method)
(glotaran.analysis.optimization_group_calculator_unlinked.OptimizationGroupCalculatorUnlinked method)
CalculatedMatrix (class in glotaran.analysis.util)
capitalize() (glotaran.utils.ipython.MarkdownStr method)
casefold() (glotaran.utils.ipython.MarkdownStr method)
center (glotaran.builtin.megacomplexes.decay.irf.IrfGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfMultiGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralMultiGaussian property)
center() (glotaran.utils.ipython.MarkdownStr method)
center_dispersion_coefficients (glotaran.builtin.megacomplexes.decay.irf.IrfSpectralGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralMultiGaussian property)
check_overdue() (in module glotaran.deprecation.deprecation_utils)
check_qualnames_in_tests() (in module glotaran.deprecation.deprecation_utils)
chi_square (glotaran.project.result.Result attribute)
clear() (glotaran.parameter.parameter_group.ParameterGroup method)
(glotaran.utils.io.DatasetMapping method)
clp_labels (glotaran.analysis.util.CalculatedMatrix attribute)
clp_link_tolerance (glotaran.project.scheme.Scheme attribute)
clps (glotaran.analysis.optimization_group.OptimizationGroup property)
CoherentArtifactMegacomplex (class in glotaran.builtin.megacomplexes.coherent_artifact.coherent_artifact_megacomplex)
combine() (glotaran.builtin.megacomplexes.decay.k_matrix.KMatrix method)
combine_matrices() (in module glotaran.analysis.optimization_group_calculator_linked)
combine_matrix() (in module glotaran.analysis.util)
compartments (glotaran.builtin.megacomplexes.decay.initial_concentration.InitialConcentration property)
(glotaran.testing.model_generators.SimpleModelGenerator attribute)
compartments() (glotaran.builtin.megacomplexes.coherent_artifact.coherent_artifact_megacomplex.CoherentArtifactMegacomplex method)
Constraint (class in glotaran.model.constraint)
convert() (glotaran.cli.commands.util.ValOrRangeOrList method)
convert_scientific_to_float() (in module glotaran.utils.sanitize)
copy() (glotaran.parameter.parameter_group.ParameterGroup method)
cost (glotaran.analysis.optimization_group.OptimizationGroup property)
(glotaran.project.result.Result attribute)
count() (glotaran.analysis.optimization_group_calculator_linked.DatasetIndexModel method)
(glotaran.analysis.optimization_group_calculator_linked.DatasetIndexModelGroup method)
(glotaran.analysis.util.CalculatedMatrix method)
(glotaran.utils.ipython.MarkdownStr method)
covariance_matrix (glotaran.project.result.Result attribute)
create_dataset_model_type() (in module glotaran.model.dataset_model)
create_index_dependent_result_dataset() (glotaran.analysis.optimization_group_calculator.OptimizationGroupCalculator method)
(glotaran.analysis.optimization_group_calculator_linked.OptimizationGroupCalculatorLinked method)
(glotaran.analysis.optimization_group_calculator_unlinked.OptimizationGroupCalculatorUnlinked method)
create_index_independent_result_dataset() (glotaran.analysis.optimization_group_calculator.OptimizationGroupCalculator method)
(glotaran.analysis.optimization_group_calculator_linked.OptimizationGroupCalculatorLinked method)
(glotaran.analysis.optimization_group_calculator_unlinked.OptimizationGroupCalculatorUnlinked method)
create_result_data() (glotaran.analysis.optimization_group.OptimizationGroup method)
create_result_dataset() (glotaran.analysis.optimization_group.OptimizationGroup method)
CsvProjectIo (class in glotaran.builtin.io.csv.csv)
D
DampedOscillationMegacomplex (class in glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex)
data (glotaran.analysis.optimization_group.OptimizationGroup property)
(glotaran.analysis.optimization_group_calculator_linked.DatasetIndexModelGroup attribute)
(glotaran.project.result.Result attribute)
(glotaran.project.scheme.Scheme attribute)
data_filter (glotaran.plugin_system.project_io_registration.SavingOptions attribute)
data_format (glotaran.plugin_system.project_io_registration.SavingOptions attribute)
data_io_plugin_table() (in module glotaran.plugin_system.data_io_registration)
data_sizes (glotaran.analysis.optimization_group_calculator_linked.DatasetIndexModelGroup attribute)
DataFileType (class in glotaran.builtin.io.ascii.wavelength_time_explicit_file)
DataIoInterface (class in glotaran.io.interface)
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)
dataset_group_models (glotaran.model.model.Model property)
dataset_models (glotaran.analysis.optimization_group.OptimizationGroup property)
(glotaran.analysis.optimization_group_calculator_linked.DatasetIndexModelGroup attribute)
(glotaran.model.dataset_group.DatasetGroup attribute)
DatasetGroup (class in glotaran.model.dataset_group)
DatasetGroupModel (class in glotaran.model.dataset_group)
DatasetIndexModel (class in glotaran.analysis.optimization_group_calculator_linked)
DatasetIndexModelGroup (class in glotaran.analysis.optimization_group_calculator_linked)
DatasetMapping (class in glotaran.utils.io)
DatasetModel (class in glotaran.model.dataset_model)
datasets (glotaran.model.weight.Weight property)
decay_matrix_implementation() (in module glotaran.builtin.megacomplexes.decay.util)
DecayMegacomplex (class in glotaran.builtin.megacomplexes.decay.decay_megacomplex)
default_megacomplex (glotaran.model.model.Model property)
(glotaran.testing.model_generators.SimpleModelGenerator attribute)
degrees_of_freedom (glotaran.project.result.Result attribute)
deleter() (glotaran.model.property.ModelProperty method)
deprecate() (in module glotaran.deprecation.deprecation_utils)
deprecate_dict_entry() (in module glotaran.deprecation.deprecation_utils)
deprecate_module_attribute() (in module glotaran.deprecation.deprecation_utils)
deprecate_submodule() (in module glotaran.deprecation.deprecation_utils)
dimension (glotaran.builtin.megacomplexes.baseline.baseline_megacomplex.BaselineMegacomplex property)
(glotaran.builtin.megacomplexes.coherent_artifact.coherent_artifact_megacomplex.CoherentArtifactMegacomplex property)
(glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex.DampedOscillationMegacomplex property)
(glotaran.builtin.megacomplexes.decay.decay_megacomplex.DecayMegacomplex property)
(glotaran.builtin.megacomplexes.spectral.spectral_megacomplex.SpectralMegacomplex property)
dispersion_center (glotaran.builtin.megacomplexes.decay.irf.IrfSpectralGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralMultiGaussian property)
(glotaran.testing.model_generators.SimpleModelGenerator attribute)
dispersion_coefficients (glotaran.testing.model_generators.SimpleModelGenerator attribute)
display_file() (in module glotaran.utils.ipython)
E
eigen() (glotaran.builtin.megacomplexes.decay.k_matrix.KMatrix method)
elements_in_string_of_list (glotaran.utils.regex.RegexPattern attribute)
empty() (glotaran.builtin.megacomplexes.decay.k_matrix.KMatrix class method)
encode() (glotaran.utils.ipython.MarkdownStr method)
endswith() (glotaran.utils.ipython.MarkdownStr method)
ensure_oscillation_parameter() (glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex.DampedOscillationMegacomplex method)
ensure_unique_megacomplexes() (glotaran.model.dataset_model.DatasetModel method)
envvar_list_splitter (glotaran.cli.commands.util.ValOrRangeOrList attribute)
EqualAreaPenalty (class in glotaran.model.clp_penalties)
exclude_from_dict_field() (in module glotaran.project.dataclass_helpers)
exclude_from_normalize (glotaran.builtin.megacomplexes.decay.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)
file_loadable_field() (in module glotaran.project.dataclass_helpers)
file_loader_factory() (in module glotaran.project.dataclass_helpers)
FileLoadableProtocol (class in glotaran.typing.protocols)
fill() (glotaran.builtin.megacomplexes.baseline.baseline_megacomplex.BaselineMegacomplex method)
(glotaran.builtin.megacomplexes.coherent_artifact.coherent_artifact_megacomplex.CoherentArtifactMegacomplex method)
(glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex.DampedOscillationMegacomplex method)
(glotaran.builtin.megacomplexes.decay.decay_megacomplex.DecayMegacomplex method)
(glotaran.builtin.megacomplexes.decay.initial_concentration.InitialConcentration method)
(glotaran.builtin.megacomplexes.decay.irf.IrfGaussian method)
(glotaran.builtin.megacomplexes.decay.irf.IrfMeasured method)
(glotaran.builtin.megacomplexes.decay.irf.IrfMultiGaussian method)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralGaussian method)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralMultiGaussian method)
(glotaran.builtin.megacomplexes.decay.k_matrix.KMatrix method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeGaussian method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeOne method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeSkewedGaussian method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeZero method)
(glotaran.builtin.megacomplexes.spectral.spectral_megacomplex.SpectralMegacomplex method)
(glotaran.model.clp_penalties.EqualAreaPenalty method)
(glotaran.model.constraint.OnlyConstraint method)
(glotaran.model.constraint.ZeroConstraint method)
(glotaran.model.interval_property.IntervalProperty method)
(glotaran.model.relation.Relation method)
(glotaran.model.weight.Weight method)
finalize_data() (glotaran.builtin.megacomplexes.baseline.baseline_megacomplex.BaselineMegacomplex method)
(glotaran.builtin.megacomplexes.coherent_artifact.coherent_artifact_megacomplex.CoherentArtifactMegacomplex method)
(glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex.DampedOscillationMegacomplex method)
(glotaran.builtin.megacomplexes.decay.decay_megacomplex.DecayMegacomplex method)
(glotaran.builtin.megacomplexes.spectral.spectral_megacomplex.SpectralMegacomplex method)
(glotaran.model.dataset_model.DatasetModel method)
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_map() (glotaran.utils.ipython.MarkdownStr method)
free_parameter_labels (glotaran.project.result.Result attribute)
frequencies (glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex.DampedOscillationMegacomplex property)
from_csv() (glotaran.parameter.parameter_history.ParameterHistory class method)
from_dataframe() (glotaran.parameter.parameter_group.ParameterGroup class method)
(glotaran.parameter.parameter_history.ParameterHistory class method)
from_dict() (glotaran.builtin.megacomplexes.baseline.baseline_megacomplex.BaselineMegacomplex class method)
(glotaran.builtin.megacomplexes.coherent_artifact.coherent_artifact_megacomplex.CoherentArtifactMegacomplex class method)
(glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex.DampedOscillationMegacomplex class method)
(glotaran.builtin.megacomplexes.decay.decay_megacomplex.DecayMegacomplex class method)
(glotaran.builtin.megacomplexes.decay.initial_concentration.InitialConcentration class method)
(glotaran.builtin.megacomplexes.decay.irf.IrfGaussian class method)
(glotaran.builtin.megacomplexes.decay.irf.IrfMeasured class method)
(glotaran.builtin.megacomplexes.decay.irf.IrfMultiGaussian class method)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralGaussian class method)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralMultiGaussian class method)
(glotaran.builtin.megacomplexes.decay.k_matrix.KMatrix class method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeGaussian class method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeOne class method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeSkewedGaussian class method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeZero class method)
(glotaran.builtin.megacomplexes.spectral.spectral_megacomplex.SpectralMegacomplex class method)
(glotaran.model.clp_penalties.EqualAreaPenalty class method)
(glotaran.model.constraint.OnlyConstraint class method)
(glotaran.model.constraint.ZeroConstraint class method)
(glotaran.model.interval_property.IntervalProperty class method)
(glotaran.model.model.Model class method)
(glotaran.model.relation.Relation class method)
(glotaran.model.weight.Weight class method)
(glotaran.parameter.parameter.Parameter class method)
(glotaran.parameter.parameter_group.ParameterGroup class method)
from_list() (glotaran.parameter.parameter_group.ParameterGroup class method)
from_list_or_value() (glotaran.parameter.parameter.Parameter class method)
from_parameter_dict_list() (glotaran.parameter.parameter_group.ParameterGroup class method)
from_yaml_file() (glotaran.project.scheme.Scheme static method)
fromdict() (in module glotaran.project.dataclass_helpers)
fromkeys() (glotaran.parameter.parameter_group.ParameterGroup method)
fset (glotaran.model.property.ModelProperty attribute)
ftol (glotaran.project.scheme.Scheme attribute)
full() (glotaran.builtin.megacomplexes.decay.k_matrix.KMatrix method)
full_k_matrix() (glotaran.builtin.megacomplexes.decay.decay_megacomplex.DecayMegacomplex method)
full_label (glotaran.parameter.parameter.Parameter property)
full_penalty (glotaran.analysis.optimization_group.OptimizationGroup property)
full_plugin_name() (in module glotaran.plugin_system.base_registry)
G
get() (glotaran.parameter.parameter_group.ParameterGroup method)
(glotaran.utils.io.DatasetMapping method)
get_coordinates() (glotaran.model.dataset_model.DatasetModel method)
get_data() (glotaran.model.dataset_model.DatasetModel 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.project.result.Result method)
get_dataset_groups() (glotaran.model.model.Model method)
get_default_type() (glotaran.builtin.megacomplexes.decay.irf.Irf class method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShape class method)
(glotaran.model.constraint.Constraint 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_global_axis() (glotaran.model.dataset_model.DatasetModel method)
get_global_dimension() (glotaran.model.dataset_model.DatasetModel method)
get_group_for_parameter_by_label() (glotaran.parameter.parameter_group.ParameterGroup method)
get_idx_from_interval() (in module glotaran.analysis.util)
get_interval_number() (in module glotaran.builtin.io.ascii.wavelength_time_explicit_file)
get_label_value_and_bounds_arrays() (glotaran.parameter.parameter_group.ParameterGroup method)
get_megacomplex() (in module glotaran.plugin_system.megacomplex_registration)
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_axis() (glotaran.model.dataset_model.DatasetModel method)
get_model_dimension() (glotaran.model.dataset_model.DatasetModel method)
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_parameters() (glotaran.model.model.Model method)
(glotaran.parameter.parameter_history.ParameterHistory 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_subtype() (in module glotaran.model.util)
get_value_and_bounds_for_optimization() (glotaran.parameter.parameter.Parameter method)
get_weight() (glotaran.model.dataset_model.DatasetModel method)
getter() (glotaran.model.property.ModelProperty method)
global_dimension (glotaran.model.model.Model property)
global_dimensions (glotaran.project.scheme.Scheme property)
global_interval (glotaran.model.weight.Weight property)
global_matrices (glotaran.analysis.optimization_group_calculator_unlinked.OptimizationGroupCalculatorUnlinked property)
global_megacomplex (glotaran.model.model.Model property)
glotaran
module
glotaran command line option
--version
glotaran-optimize command line option
--data <data>
--dataformat <dataformat>
--model_file <model_file>
--nfev <nfev>
--nnls
--out <out>
--outformat <outformat>
--parameters_file <parameters_file>
--yes
-d
-dfmt
-m
-n
-o
-ofmt
-p
-y
SCHEME_FILE
glotaran-print command line option
--model_file <model_file>
--parameters_file <parameters_file>
-m
-p
SCHEME_FILE
glotaran-validate command line option
--model_file <model_file>
--parameters_file <parameters_file>
-m
-p
SCHEME_FILE
glotaran.analysis
module
glotaran.analysis.nnls
module
glotaran.analysis.optimization_group
module
glotaran.analysis.optimization_group_calculator
module
glotaran.analysis.optimization_group_calculator_linked
module
glotaran.analysis.optimization_group_calculator_unlinked
module
glotaran.analysis.optimize
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.yml
module
glotaran.builtin.megacomplexes
module
glotaran.builtin.megacomplexes.baseline
module
glotaran.builtin.megacomplexes.baseline.baseline_megacomplex
module
glotaran.builtin.megacomplexes.coherent_artifact
module
glotaran.builtin.megacomplexes.coherent_artifact.coherent_artifact_megacomplex
module
glotaran.builtin.megacomplexes.damped_oscillation
module
glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex
module
glotaran.builtin.megacomplexes.decay
module
glotaran.builtin.megacomplexes.decay.decay_megacomplex
module
glotaran.builtin.megacomplexes.decay.initial_concentration
module
glotaran.builtin.megacomplexes.decay.irf
module
glotaran.builtin.megacomplexes.decay.k_matrix
module
glotaran.builtin.megacomplexes.decay.util
module
glotaran.builtin.megacomplexes.spectral
module
glotaran.builtin.megacomplexes.spectral.shape
module
glotaran.builtin.megacomplexes.spectral.spectral_megacomplex
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.deprecation
module
glotaran.deprecation.deprecation_utils
module
glotaran.deprecation.modules
module
glotaran.deprecation.modules.builtin_io_yml
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.clp_penalties
module
glotaran.model.constraint
module
glotaran.model.dataset_group
module
glotaran.model.dataset_model
module
glotaran.model.interval_property
module
glotaran.model.item
module
glotaran.model.model
module
glotaran.model.property
module
glotaran.model.relation
module
glotaran.model.util
module
glotaran.model.weight
module
glotaran.parameter
module
glotaran.parameter.parameter
module
glotaran.parameter.parameter_group
module
glotaran.parameter.parameter_history
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.megacomplex_registration
module
glotaran.plugin_system.project_io_registration
module
glotaran.project
module
glotaran.project.dataclass_helpers
module
glotaran.project.result
module
glotaran.project.scheme
module
glotaran.testing
module
glotaran.testing.model_generators
module
glotaran.testing.plugin_system
module
glotaran.typing
module
glotaran.typing.protocols
module
glotaran.typing.types
module
glotaran.utils
module
glotaran.utils.io
module
glotaran.utils.ipython
module
glotaran.utils.regex
module
glotaran.utils.sanitize
module
glotaran_allow_none (glotaran.model.property.ModelProperty property)
glotaran_dataset_model_items() (glotaran.builtin.megacomplexes.baseline.baseline_megacomplex.BaselineMegacomplex class method)
(glotaran.builtin.megacomplexes.coherent_artifact.coherent_artifact_megacomplex.CoherentArtifactMegacomplex class method)
(glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex.DampedOscillationMegacomplex class method)
(glotaran.builtin.megacomplexes.decay.decay_megacomplex.DecayMegacomplex class method)
(glotaran.builtin.megacomplexes.spectral.spectral_megacomplex.SpectralMegacomplex class method)
glotaran_dataset_properties() (glotaran.builtin.megacomplexes.baseline.baseline_megacomplex.BaselineMegacomplex class method)
(glotaran.builtin.megacomplexes.coherent_artifact.coherent_artifact_megacomplex.CoherentArtifactMegacomplex class method)
(glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex.DampedOscillationMegacomplex class method)
(glotaran.builtin.megacomplexes.decay.decay_megacomplex.DecayMegacomplex class method)
(glotaran.builtin.megacomplexes.spectral.spectral_megacomplex.SpectralMegacomplex class method)
glotaran_fill() (glotaran.model.property.ModelProperty method)
glotaran_format_value() (glotaran.model.property.ModelProperty method)
glotaran_is_mapping_property (glotaran.model.property.ModelProperty property)
glotaran_is_parameter_property (glotaran.model.property.ModelProperty property)
glotaran_is_scalar_property (glotaran.model.property.ModelProperty property)
glotaran_is_sequence_property (glotaran.model.property.ModelProperty property)
glotaran_model_items() (glotaran.builtin.megacomplexes.baseline.baseline_megacomplex.BaselineMegacomplex class method)
(glotaran.builtin.megacomplexes.coherent_artifact.coherent_artifact_megacomplex.CoherentArtifactMegacomplex class method)
(glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex.DampedOscillationMegacomplex class method)
(glotaran.builtin.megacomplexes.decay.decay_megacomplex.DecayMegacomplex class method)
(glotaran.builtin.megacomplexes.spectral.spectral_megacomplex.SpectralMegacomplex class method)
glotaran_property_subtype (glotaran.model.property.ModelProperty property)
glotaran_property_type (glotaran.model.property.ModelProperty property)
glotaran_replace_parameter_with_labels() (glotaran.model.property.ModelProperty method)
glotaran_unique() (glotaran.builtin.megacomplexes.baseline.baseline_megacomplex.BaselineMegacomplex class method)
(glotaran.builtin.megacomplexes.coherent_artifact.coherent_artifact_megacomplex.CoherentArtifactMegacomplex class method)
(glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex.DampedOscillationMegacomplex class method)
(glotaran.builtin.megacomplexes.decay.decay_megacomplex.DecayMegacomplex class method)
(glotaran.builtin.megacomplexes.spectral.spectral_megacomplex.SpectralMegacomplex class method)
glotaran_validate() (glotaran.model.property.ModelProperty method)
glotaran_value_as_markdown() (glotaran.model.property.ModelProperty method)
glotaran_version (glotaran.project.result.Result attribute)
glotaran_version() (in module glotaran.deprecation.deprecation_utils)
group (glotaran.analysis.optimization_group_calculator_linked.DatasetIndexModelGroup attribute)
(glotaran.project.scheme.Scheme attribute)
(glotaran.utils.regex.RegexPattern attribute)
group_tolerance (glotaran.project.scheme.Scheme attribute)
groups (glotaran.analysis.optimization_group_calculator_linked.OptimizationGroupCalculatorLinked property)
groups() (glotaran.parameter.parameter_group.ParameterGroup method)
gtol (glotaran.project.scheme.Scheme attribute)
H
has() (glotaran.parameter.parameter_group.ParameterGroup method)
has_global_model() (glotaran.model.dataset_model.DatasetModel method)
has_k_matrix() (glotaran.builtin.megacomplexes.decay.decay_megacomplex.DecayMegacomplex method)
has_scaling (glotaran.analysis.optimization_group_calculator_linked.DatasetIndexModelGroup attribute)
has_spectral_penalties() (in module glotaran.model.clp_penalties)
I
index() (glotaran.analysis.optimization_group_calculator_linked.DatasetIndexModel method)
(glotaran.analysis.optimization_group_calculator_linked.DatasetIndexModelGroup method)
(glotaran.analysis.util.CalculatedMatrix method)
(glotaran.utils.ipython.MarkdownStr method)
index_dependent() (glotaran.builtin.megacomplexes.baseline.baseline_megacomplex.BaselineMegacomplex method)
(glotaran.builtin.megacomplexes.coherent_artifact.coherent_artifact_megacomplex.CoherentArtifactMegacomplex method)
(glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex.DampedOscillationMegacomplex method)
(glotaran.builtin.megacomplexes.decay.decay_megacomplex.DecayMegacomplex method)
(glotaran.builtin.megacomplexes.spectral.spectral_megacomplex.SpectralMegacomplex method)
indices (glotaran.analysis.optimization_group_calculator_linked.DatasetIndexModel attribute)
inferr_file_format() (in module glotaran.plugin_system.io_plugin_utils)
init_bag() (glotaran.analysis.optimization_group_calculator_linked.OptimizationGroupCalculatorLinked method)
init_file_loadable_fields() (in module glotaran.project.dataclass_helpers)
initial_concentration (glotaran.testing.model_generators.SimpleModelGenerator attribute)
initial_parameters (glotaran.project.result.Result attribute)
InitialConcentration (class in glotaran.builtin.megacomplexes.decay.initial_concentration)
interval (glotaran.model.constraint.OnlyConstraint property)
(glotaran.model.constraint.ZeroConstraint property)
(glotaran.model.interval_property.IntervalProperty property)
(glotaran.model.relation.Relation property)
IntervalProperty (class in glotaran.model.interval_property)
involved_compartments (glotaran.builtin.megacomplexes.decay.decay_megacomplex.DecayMegacomplex property)
involved_compartments() (glotaran.builtin.megacomplexes.decay.k_matrix.KMatrix method)
Irf (class in glotaran.builtin.megacomplexes.decay.irf)
irf (glotaran.testing.model_generators.SimpleModelGenerator attribute)
IrfGaussian (class in glotaran.builtin.megacomplexes.decay.irf)
IrfMeasured (class in glotaran.builtin.megacomplexes.decay.irf)
IrfMultiGaussian (class in glotaran.builtin.megacomplexes.decay.irf)
IrfSpectralGaussian (class in glotaran.builtin.megacomplexes.decay.irf)
IrfSpectralMultiGaussian (class in glotaran.builtin.megacomplexes.decay.irf)
is_composite (glotaran.cli.commands.util.ValOrRangeOrList attribute)
is_groupable() (glotaran.model.model.Model method)
is_index_dependent() (glotaran.builtin.megacomplexes.decay.irf.IrfGaussian method)
(glotaran.builtin.megacomplexes.decay.irf.IrfMultiGaussian method)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralGaussian method)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralMultiGaussian method)
(glotaran.model.dataset_model.DatasetModel method)
is_known_data_format() (in module glotaran.plugin_system.data_io_registration)
is_known_megacomplex() (in module glotaran.plugin_system.megacomplex_registration)
is_known_project_format() (in module glotaran.plugin_system.project_io_registration)
is_mapping_type() (in module glotaran.model.util)
is_registered_plugin() (in module glotaran.plugin_system.base_registry)
is_scalar_type() (in module glotaran.model.util)
is_sequence_type() (in module glotaran.model.util)
is_unibranched() (glotaran.builtin.megacomplexes.decay.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)
(glotaran.utils.io.DatasetMapping method)
iterate_global_megacomplexes() (glotaran.model.dataset_model.DatasetModel method)
iterate_megacomplexes() (glotaran.model.dataset_model.DatasetModel method)
J
jacobian (glotaran.project.result.Result attribute)
join() (glotaran.utils.ipython.MarkdownStr method)
K
k_matrix (glotaran.builtin.megacomplexes.decay.decay_megacomplex.DecayMegacomplex property)
(glotaran.testing.model_generators.SimpleModelGenerator attribute)
Keys (class in glotaran.parameter.parameter)
keys() (glotaran.parameter.parameter_group.ParameterGroup method)
(glotaran.utils.io.DatasetMapping method)
KMatrix (class in glotaran.builtin.megacomplexes.decay.k_matrix)
known_data_formats() (in module glotaran.plugin_system.data_io_registration)
known_megacomplex_names() (in module glotaran.plugin_system.megacomplex_registration)
known_project_formats() (in module glotaran.plugin_system.project_io_registration)
L
label (glotaran.analysis.optimization_group_calculator_linked.DatasetIndexModel attribute)
(glotaran.builtin.megacomplexes.baseline.baseline_megacomplex.BaselineMegacomplex property)
(glotaran.builtin.megacomplexes.coherent_artifact.coherent_artifact_megacomplex.CoherentArtifactMegacomplex property)
(glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex.DampedOscillationMegacomplex property)
(glotaran.builtin.megacomplexes.decay.decay_megacomplex.DecayMegacomplex property)
(glotaran.builtin.megacomplexes.decay.initial_concentration.InitialConcentration property)
(glotaran.builtin.megacomplexes.decay.irf.IrfGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfMeasured property)
(glotaran.builtin.megacomplexes.decay.irf.IrfMultiGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralMultiGaussian property)
(glotaran.builtin.megacomplexes.decay.k_matrix.KMatrix property)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeGaussian property)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeOne property)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeSkewedGaussian property)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeZero property)
(glotaran.builtin.megacomplexes.spectral.spectral_megacomplex.SpectralMegacomplex property)
(glotaran.parameter.parameter.Parameter property)
(glotaran.parameter.parameter_group.ParameterGroup property)
labels (glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex.DampedOscillationMegacomplex property)
link_clp (glotaran.model.dataset_group.DatasetGroupModel attribute)
list_string_to_tuple() (in module glotaran.utils.sanitize)
list_with_tuples (glotaran.utils.regex.RegexPattern attribute)
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_datasets() (in module glotaran.utils.io)
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)
loader (glotaran.typing.protocols.FileLoadableProtocol attribute)
loader() (glotaran.model.model.Model method)
(glotaran.parameter.parameter_group.ParameterGroup method)
(glotaran.parameter.parameter_history.ParameterHistory class method)
(glotaran.project.result.Result method)
(glotaran.project.scheme.Scheme method)
(glotaran.utils.io.DatasetMapping class method)
location (glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeGaussian property)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeSkewedGaussian property)
lower() (glotaran.utils.ipython.MarkdownStr method)
lstrip() (glotaran.utils.ipython.MarkdownStr method)
M
main (in module glotaran.cli)
maketrans() (glotaran.utils.ipython.MarkdownStr method)
markdown() (glotaran.builtin.megacomplexes.baseline.baseline_megacomplex.BaselineMegacomplex method)
(glotaran.builtin.megacomplexes.coherent_artifact.coherent_artifact_megacomplex.CoherentArtifactMegacomplex method)
(glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex.DampedOscillationMegacomplex method)
(glotaran.builtin.megacomplexes.decay.decay_megacomplex.DecayMegacomplex method)
(glotaran.builtin.megacomplexes.decay.initial_concentration.InitialConcentration method)
(glotaran.builtin.megacomplexes.decay.irf.IrfGaussian method)
(glotaran.builtin.megacomplexes.decay.irf.IrfMeasured method)
(glotaran.builtin.megacomplexes.decay.irf.IrfMultiGaussian method)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralGaussian method)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralMultiGaussian method)
(glotaran.builtin.megacomplexes.decay.k_matrix.KMatrix method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeGaussian method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeOne method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeSkewedGaussian method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeZero method)
(glotaran.builtin.megacomplexes.spectral.spectral_megacomplex.SpectralMegacomplex method)
(glotaran.model.clp_penalties.EqualAreaPenalty method)
(glotaran.model.constraint.OnlyConstraint method)
(glotaran.model.constraint.ZeroConstraint method)
(glotaran.model.interval_property.IntervalProperty method)
(glotaran.model.model.Model method)
(glotaran.model.relation.Relation method)
(glotaran.model.weight.Weight method)
(glotaran.parameter.parameter.Parameter method)
(glotaran.parameter.parameter_group.ParameterGroup method)
(glotaran.project.result.Result method)
(glotaran.project.scheme.Scheme method)
(glotaran.testing.model_generators.SimpleModelGenerator method)
MarkdownStr (class in glotaran.utils.ipython)
matrices (glotaran.analysis.optimization_group.OptimizationGroup property)
matrix (glotaran.analysis.util.CalculatedMatrix attribute)
(glotaran.builtin.megacomplexes.decay.k_matrix.KMatrix property)
matrix_as_markdown() (glotaran.builtin.megacomplexes.decay.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() (in module glotaran.model)
megacomplex_plugin_table() (in module glotaran.plugin_system.megacomplex_registration)
megacomplex_types (glotaran.model.model.Model 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.model)
model (glotaran.analysis.optimization_group.OptimizationGroup property)
(glotaran.model.dataset_group.DatasetGroup attribute)
(glotaran.project.result.Result property)
(glotaran.project.scheme.Scheme attribute)
(glotaran.testing.model_generators.SimpleModelGenerator property)
model_and_parameters (glotaran.testing.model_generators.SimpleModelGenerator property)
model_dict (glotaran.testing.model_generators.SimpleModelGenerator property)
model_dimension (glotaran.model.model.Model property)
model_dimensions (glotaran.project.scheme.Scheme property)
model_dispersion_with_wavenumber (glotaran.builtin.megacomplexes.decay.irf.IrfSpectralGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralMultiGaussian property)
model_interval (glotaran.model.weight.Weight property)
model_item() (in module glotaran.model.item)
model_item_typed() (in module glotaran.model.item)
model_item_validator() (in module glotaran.model.item)
model_items (glotaran.model.model.Model property)
model_spec_deprecations() (in module glotaran.deprecation.modules.builtin_io_yml)
ModelProperty (class in glotaran.model.property)
module
glotaran
glotaran.analysis
glotaran.analysis.nnls
glotaran.analysis.optimization_group
glotaran.analysis.optimization_group_calculator
glotaran.analysis.optimization_group_calculator_linked
glotaran.analysis.optimization_group_calculator_unlinked
glotaran.analysis.optimize
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.yml
glotaran.builtin.megacomplexes
glotaran.builtin.megacomplexes.baseline
glotaran.builtin.megacomplexes.baseline.baseline_megacomplex
glotaran.builtin.megacomplexes.coherent_artifact
glotaran.builtin.megacomplexes.coherent_artifact.coherent_artifact_megacomplex
glotaran.builtin.megacomplexes.damped_oscillation
glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex
glotaran.builtin.megacomplexes.decay
glotaran.builtin.megacomplexes.decay.decay_megacomplex
glotaran.builtin.megacomplexes.decay.initial_concentration
glotaran.builtin.megacomplexes.decay.irf
glotaran.builtin.megacomplexes.decay.k_matrix
glotaran.builtin.megacomplexes.decay.util
glotaran.builtin.megacomplexes.spectral
glotaran.builtin.megacomplexes.spectral.shape
glotaran.builtin.megacomplexes.spectral.spectral_megacomplex
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.deprecation
glotaran.deprecation.deprecation_utils
glotaran.deprecation.modules
glotaran.deprecation.modules.builtin_io_yml
glotaran.deprecation.modules.glotaran_root
glotaran.examples
glotaran.examples.sequential
glotaran.io
glotaran.io.interface
glotaran.io.prepare_dataset
glotaran.model
glotaran.model.clp_penalties
glotaran.model.constraint
glotaran.model.dataset_group
glotaran.model.dataset_model
glotaran.model.interval_property
glotaran.model.item
glotaran.model.model
glotaran.model.property
glotaran.model.relation
glotaran.model.util
glotaran.model.weight
glotaran.parameter
glotaran.parameter.parameter
glotaran.parameter.parameter_group
glotaran.parameter.parameter_history
glotaran.plugin_system
glotaran.plugin_system.base_registry
glotaran.plugin_system.data_io_registration
glotaran.plugin_system.io_plugin_utils
glotaran.plugin_system.megacomplex_registration
glotaran.plugin_system.project_io_registration
glotaran.project
glotaran.project.dataclass_helpers
glotaran.project.result
glotaran.project.scheme
glotaran.testing
glotaran.testing.model_generators
glotaran.testing.plugin_system
glotaran.typing
glotaran.typing.protocols
glotaran.typing.types
glotaran.utils
glotaran.utils.io
glotaran.utils.ipython
glotaran.utils.regex
glotaran.utils.sanitize
module_attribute() (in module glotaran.deprecation.deprecation_utils)
monkeypatch_plugin_registry() (in module glotaran.testing.plugin_system)
monkeypatch_plugin_registry_data_io() (in module glotaran.testing.plugin_system)
monkeypatch_plugin_registry_megacomplex() (in module glotaran.testing.plugin_system)
monkeypatch_plugin_registry_project_io() (in module glotaran.testing.plugin_system)
N
name (glotaran.builtin.megacomplexes.baseline.baseline_megacomplex.BaselineMegacomplex attribute)
(glotaran.builtin.megacomplexes.coherent_artifact.coherent_artifact_megacomplex.CoherentArtifactMegacomplex attribute)
(glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex.DampedOscillationMegacomplex attribute)
(glotaran.builtin.megacomplexes.decay.decay_megacomplex.DecayMegacomplex attribute)
(glotaran.builtin.megacomplexes.spectral.spectral_megacomplex.SpectralMegacomplex attribute)
(glotaran.cli.commands.util.ValOrRangeOrList attribute)
need_index_dependent() (glotaran.model.model.Model method)
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.megacomplexes.decay.irf.IrfGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfMultiGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralMultiGaussian property)
normalized() (glotaran.builtin.megacomplexes.decay.initial_concentration.InitialConcentration method)
not_implemented_to_value_error() (in module glotaran.plugin_system.io_plugin_utils)
number (glotaran.utils.regex.RegexPattern attribute)
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_records (glotaran.parameter.parameter_history.ParameterHistory property)
number_of_variables (glotaran.project.result.Result attribute)
number_scientific (glotaran.utils.regex.RegexPattern attribute)
O
OnlyConstraint (class in glotaran.model.constraint)
optimality (glotaran.project.result.Result attribute)
optimization_method (glotaran.project.scheme.Scheme attribute)
OptimizationGroup (class in glotaran.analysis.optimization_group)
OptimizationGroupCalculator (class in glotaran.analysis.optimization_group_calculator)
OptimizationGroupCalculatorLinked (class in glotaran.analysis.optimization_group_calculator_linked)
OptimizationGroupCalculatorUnlinked (class in glotaran.analysis.optimization_group_calculator_unlinked)
optimize() (in module glotaran.analysis.optimize)
optimize_cmd() (in module glotaran.cli.commands.optimize)
optimized_parameters (glotaran.project.result.Result attribute)
order (glotaran.builtin.megacomplexes.coherent_artifact.coherent_artifact_megacomplex.CoherentArtifactMegacomplex property)
overwrite_global_dimension() (glotaran.model.dataset_model.DatasetModel method)
overwrite_index_dependent() (glotaran.model.dataset_model.DatasetModel method)
overwrite_model_dimension() (glotaran.model.dataset_model.DatasetModel method)
P
Parameter (class in glotaran.parameter.parameter)
parameter (glotaran.model.clp_penalties.EqualAreaPenalty property)
(glotaran.model.relation.Relation property)
parameter() (glotaran.builtin.megacomplexes.decay.irf.IrfGaussian method)
(glotaran.builtin.megacomplexes.decay.irf.IrfMultiGaussian method)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralGaussian method)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralMultiGaussian method)
parameter_format (glotaran.plugin_system.project_io_registration.SavingOptions attribute)
parameter_history (glotaran.project.result.Result attribute)
parameter_labels (glotaran.parameter.parameter_history.ParameterHistory property)
ParameterGroup (class in glotaran.parameter.parameter_group)
ParameterHistory (class in glotaran.parameter.parameter_history)
parameters (glotaran.analysis.optimization_group.OptimizationGroup property)
(glotaran.builtin.megacomplexes.decay.initial_concentration.InitialConcentration property)
(glotaran.parameter.parameter_history.ParameterHistory property)
(glotaran.project.scheme.Scheme attribute)
(glotaran.testing.model_generators.SimpleModelGenerator property)
parameters_dict (glotaran.testing.model_generators.SimpleModelGenerator property)
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)
(glotaran.utils.io.DatasetMapping method)
popitem() (glotaran.parameter.parameter_group.ParameterGroup method)
(glotaran.utils.io.DatasetMapping method)
prepare_result_creation() (glotaran.analysis.optimization_group_calculator.OptimizationGroupCalculator method)
(glotaran.analysis.optimization_group_calculator_linked.OptimizationGroupCalculatorLinked method)
(glotaran.analysis.optimization_group_calculator_unlinked.OptimizationGroupCalculatorUnlinked method)
prepare_time_trace_dataset() (in module glotaran.io.prepare_dataset)
print_cmd() (in module glotaran.cli.commands.print)
problem_list() (glotaran.model.model.Model method)
(glotaran.project.scheme.Scheme method)
project_io_list_supporting_plugins() (in module glotaran.cli.commands.util)
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
raise_deprecation_error() (in module glotaran.deprecation.deprecation_utils)
rates (glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex.DampedOscillationMegacomplex property)
(glotaran.testing.model_generators.SimpleModelGenerator attribute)
rates() (glotaran.builtin.megacomplexes.decay.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)
recreate() (glotaran.project.result.Result method)
reduce_matrix() (in module glotaran.analysis.util)
reduced() (glotaran.builtin.megacomplexes.decay.k_matrix.KMatrix method)
reduced_chi_square (glotaran.project.result.Result attribute)
reduced_clps (glotaran.analysis.optimization_group.OptimizationGroup property)
reduced_matrices (glotaran.analysis.optimization_group.OptimizationGroup property)
RegexPattern (class in glotaran.utils.regex)
register_data_io() (in module glotaran.plugin_system.data_io_registration)
register_megacomplex() (in module glotaran.plugin_system.megacomplex_registration)
register_project_io() (in module glotaran.plugin_system.project_io_registration)
registered_plugins() (in module glotaran.plugin_system.base_registry)
Relation (class in glotaran.model.relation)
relative_posix_path() (in module glotaran.utils.io)
replace() (glotaran.utils.ipython.MarkdownStr method)
report (glotaran.plugin_system.project_io_registration.SavingOptions attribute)
reset() (glotaran.analysis.optimization_group.OptimizationGroup method)
residual_function (glotaran.model.dataset_group.DatasetGroupModel attribute)
residual_nnls() (in module glotaran.analysis.nnls)
residual_variable_projection() (in module glotaran.analysis.variable_projection)
residuals (glotaran.analysis.optimization_group.OptimizationGroup property)
Result (class in glotaran.project.result)
result_path (glotaran.project.scheme.Scheme attribute)
retrieve_clps() (in module glotaran.analysis.util)
retrieve_decay_associated_data() (in module glotaran.builtin.megacomplexes.decay.util)
retrieve_irf() (in module glotaran.builtin.megacomplexes.decay.util)
retrieve_species_associated_data() (in module glotaran.builtin.megacomplexes.decay.util)
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.utils.sanitize)
sanitize_dict_values() (in module glotaran.utils.sanitize)
sanitize_list_with_broken_tuples() (in module glotaran.utils.sanitize)
sanitize_parameter_list() (in module glotaran.utils.sanitize)
sanitize_yaml() (in module glotaran.utils.sanitize)
sanity_scientific_notation_conversion() (in module glotaran.utils.sanitize)
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_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)
SavingOptions (class in glotaran.plugin_system.project_io_registration)
scale (glotaran.builtin.megacomplexes.decay.irf.IrfGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfMultiGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralMultiGaussian property)
Scheme (class in glotaran.project.scheme)
scheme (glotaran.project.result.Result attribute)
SCHEME_FILE
glotaran-optimize command line option
glotaran-print command line option
glotaran-validate command line option
scheme_spec_deprecations() (in module glotaran.deprecation.modules.builtin_io_yml)
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_coordinates() (glotaran.model.dataset_model.DatasetModel method)
set_data() (glotaran.model.dataset_model.DatasetModel method)
set_data_plugin() (in module glotaran.plugin_system.data_io_registration)
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_history() (glotaran.parameter.parameter_group.ParameterGroup method)
set_from_label_and_value_arrays() (glotaran.parameter.parameter_group.ParameterGroup method)
set_megacomplex_plugin() (in module glotaran.plugin_system.megacomplex_registration)
set_plugin() (in module glotaran.plugin_system.base_registry)
set_project_plugin() (in module glotaran.plugin_system.project_io_registration)
set_value_from_optimization() (glotaran.parameter.parameter.Parameter method)
setdefault() (glotaran.parameter.parameter_group.ParameterGroup method)
(glotaran.utils.io.DatasetMapping method)
setter() (glotaran.model.property.ModelProperty method)
shape (glotaran.builtin.megacomplexes.spectral.spectral_megacomplex.SpectralMegacomplex property)
shell_complete() (glotaran.cli.commands.util.ValOrRangeOrList method)
shift (glotaran.builtin.megacomplexes.decay.irf.IrfGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfMultiGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralGaussian property)
(glotaran.builtin.megacomplexes.decay.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)
SimpleModelGenerator (class in glotaran.testing.model_generators)
simulate() (in module glotaran.analysis.simulation)
simulate_clp() (in module glotaran.analysis.simulation)
simulate_global_model() (in module glotaran.analysis.simulation)
skewness (glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeSkewedGaussian property)
source (glotaran.model.clp_penalties.EqualAreaPenalty property)
(glotaran.model.relation.Relation property)
source_intervals (glotaran.model.clp_penalties.EqualAreaPenalty property)
source_path (glotaran.project.result.Result attribute)
(glotaran.project.scheme.Scheme attribute)
(glotaran.typing.protocols.FileLoadableProtocol attribute)
(glotaran.utils.io.DatasetMapping property)
SpectralMegacomplex (class in glotaran.builtin.megacomplexes.spectral.spectral_megacomplex)
SpectralShape (class in glotaran.builtin.megacomplexes.spectral.shape)
SpectralShapeGaussian (class in glotaran.builtin.megacomplexes.spectral.shape)
SpectralShapeOne (class in glotaran.builtin.megacomplexes.spectral.shape)
SpectralShapeSkewedGaussian (class in glotaran.builtin.megacomplexes.spectral.shape)
SpectralShapeZero (class in glotaran.builtin.megacomplexes.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)
STD_ERR (glotaran.parameter.parameter.Keys attribute)
string_to_tuple() (in module glotaran.utils.sanitize)
strip() (glotaran.utils.ipython.MarkdownStr method)
success (glotaran.project.result.Result attribute)
swap_dimensions() (glotaran.model.dataset_model.DatasetModel method)
swapcase() (glotaran.utils.ipython.MarkdownStr method)
T
target (glotaran.model.clp_penalties.EqualAreaPenalty property)
(glotaran.model.constraint.OnlyConstraint property)
(glotaran.model.constraint.ZeroConstraint property)
(glotaran.model.relation.Relation property)
target_intervals (glotaran.model.clp_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)
(glotaran.parameter.parameter_history.ParameterHistory method)
to_dataframe() (glotaran.parameter.parameter_group.ParameterGroup method)
(glotaran.parameter.parameter_history.ParameterHistory method)
to_info_dict() (glotaran.cli.commands.util.ValOrRangeOrList method)
to_parameter_dict_list() (glotaran.parameter.parameter_group.ParameterGroup method)
transformed_expression (glotaran.parameter.parameter.Parameter property)
translate() (glotaran.utils.ipython.MarkdownStr method)
tuple_number (glotaran.utils.regex.RegexPattern attribute)
tuple_word (glotaran.utils.regex.RegexPattern attribute)
type (glotaran.builtin.megacomplexes.baseline.baseline_megacomplex.BaselineMegacomplex property)
(glotaran.builtin.megacomplexes.coherent_artifact.coherent_artifact_megacomplex.CoherentArtifactMegacomplex property)
(glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex.DampedOscillationMegacomplex property)
(glotaran.builtin.megacomplexes.decay.decay_megacomplex.DecayMegacomplex property)
(glotaran.builtin.megacomplexes.decay.irf.IrfGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfMeasured property)
(glotaran.builtin.megacomplexes.decay.irf.IrfMultiGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralMultiGaussian property)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeGaussian property)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeOne property)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeSkewedGaussian property)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeZero property)
(glotaran.builtin.megacomplexes.spectral.spectral_megacomplex.SpectralMegacomplex property)
U
update() (glotaran.parameter.parameter_group.ParameterGroup method)
(glotaran.utils.io.DatasetMapping method)
update_parameter_expression() (glotaran.parameter.parameter_group.ParameterGroup method)
upper() (glotaran.utils.ipython.MarkdownStr method)
V
valid (glotaran.testing.model_generators.SimpleModelGenerator property)
valid() (glotaran.model.model.Model method)
(glotaran.project.scheme.Scheme method)
valid_label() (glotaran.parameter.parameter.Parameter static method)
validate() (glotaran.builtin.megacomplexes.baseline.baseline_megacomplex.BaselineMegacomplex method)
(glotaran.builtin.megacomplexes.coherent_artifact.coherent_artifact_megacomplex.CoherentArtifactMegacomplex method)
(glotaran.builtin.megacomplexes.damped_oscillation.damped_oscillation_megacomplex.DampedOscillationMegacomplex method)
(glotaran.builtin.megacomplexes.decay.decay_megacomplex.DecayMegacomplex method)
(glotaran.builtin.megacomplexes.decay.initial_concentration.InitialConcentration method)
(glotaran.builtin.megacomplexes.decay.irf.IrfGaussian method)
(glotaran.builtin.megacomplexes.decay.irf.IrfMeasured method)
(glotaran.builtin.megacomplexes.decay.irf.IrfMultiGaussian method)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralGaussian method)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralMultiGaussian method)
(glotaran.builtin.megacomplexes.decay.k_matrix.KMatrix method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeGaussian method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeOne method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeSkewedGaussian method)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeZero method)
(glotaran.builtin.megacomplexes.spectral.spectral_megacomplex.SpectralMegacomplex method)
(glotaran.model.clp_penalties.EqualAreaPenalty method)
(glotaran.model.constraint.OnlyConstraint method)
(glotaran.model.constraint.ZeroConstraint method)
(glotaran.model.interval_property.IntervalProperty method)
(glotaran.model.model.Model method)
(glotaran.model.relation.Relation method)
(glotaran.model.weight.Weight method)
(glotaran.project.scheme.Scheme method)
(glotaran.testing.model_generators.SimpleModelGenerator 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)
(glotaran.utils.io.DatasetMapping method)
VARY (glotaran.parameter.parameter.Keys attribute)
vary (glotaran.parameter.parameter.Parameter property)
verify() (glotaran.project.result.Result method)
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.optimization_group_calculator_linked.DatasetIndexModelGroup attribute)
(glotaran.model.clp_penalties.EqualAreaPenalty property)
weighted_residuals (glotaran.analysis.optimization_group.OptimizationGroup property)
width (glotaran.builtin.megacomplexes.coherent_artifact.coherent_artifact_megacomplex.CoherentArtifactMegacomplex property)
(glotaran.builtin.megacomplexes.decay.irf.IrfGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfMultiGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralMultiGaussian property)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeGaussian property)
(glotaran.builtin.megacomplexes.spectral.shape.SpectralShapeSkewedGaussian property)
width_dispersion_coefficients (glotaran.builtin.megacomplexes.decay.irf.IrfSpectralGaussian property)
(glotaran.builtin.megacomplexes.decay.irf.IrfSpectralMultiGaussian property)
word (glotaran.utils.regex.RegexPattern attribute)
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.model.constraint)
zfill() (glotaran.utils.ipython.MarkdownStr method)
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v: v0.5.0
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