Index

_

__init__() (postprocessor.compiler.Compiler method) (postprocessor.compiler.ExperimentCompiler method) (postprocessor.compiler.Meta method) (postprocessor.compiler.PageOrganiser method) (postprocessor.compiler.Reporter method) (postprocessor.core.abc.PostProcessABC method) (postprocessor.core.multisignal.aggregate.aggregate method) (postprocessor.core.multisignal.aggregate.aggregateParameters method) (postprocessor.core.multisignal.align.align method) (postprocessor.core.multisignal.align.alignParameters method) (postprocessor.core.multisignal.crosscorr.crosscorr method) (postprocessor.core.multisignal.crosscorr.crosscorrParameters method) (postprocessor.core.multisignal.mi.mi method) (postprocessor.core.multisignal.mi.miParameters method) (postprocessor.core.processes.autoreg.autoreg method) (postprocessor.core.processes.autoreg.autoregParameters method) (postprocessor.core.processes.bud_metric.bud_metric method) (postprocessor.core.processes.bud_metric.bud_metricParameters method) (postprocessor.core.processes.buddings.buddings method) (postprocessor.core.processes.buddings.buddingsParameters method) (postprocessor.core.processes.butter.butter method) (postprocessor.core.processes.butter.butterParameters method) (postprocessor.core.processes.catch22.catch22 method) (postprocessor.core.processes.catch22.catch22Parameters method) (postprocessor.core.processes.detrend.detrend method) (postprocessor.core.processes.detrend.detrendParameters method) (postprocessor.core.processes.dsignal.dsignal method) (postprocessor.core.processes.dsignal.dsignalParameters method) (postprocessor.core.processes.fft.fft method) (postprocessor.core.processes.fft.fftParameters method) (postprocessor.core.processes.findpeaks.findpeaks method) (postprocessor.core.processes.findpeaks.findpeaksParameters method) (postprocessor.core.processes.gpsignal.gpsignal method) (postprocessor.core.processes.gpsignal.gpsignalParameters method) (postprocessor.core.processes.knngraph.knngraph method) (postprocessor.core.processes.knngraph.knngraphParameters method) (postprocessor.core.processes.leiden.leiden method) (postprocessor.core.processes.leiden.leidenParameters method) (postprocessor.core.processes.lineageprocess.LineageProcess method) (postprocessor.core.processes.lineageprocess.LineageProcessParameters method) (postprocessor.core.processes.merger.merger method) (postprocessor.core.processes.merger.mergerParameters method) (postprocessor.core.processes.picker.picker method) (postprocessor.core.processes.picker.pickerParameters method) (postprocessor.core.processes.savgol.savgol method) (postprocessor.core.processes.savgol.savgolParameters method) (postprocessor.core.processes.standardscaler.standardscaler method) (postprocessor.core.processes.standardscaler.standardscalerParameters method) (postprocessor.core.processes.template.Template method) (postprocessor.core.processes.template.TemplateParameters method) (postprocessor.core.processor.PostProcessor method) (postprocessor.core.processor.PostProcessorParameters method) (postprocessor.grouper.Grouper method) (postprocessor.grouper.MetaGrouper method) (postprocessor.grouper.MultiGrouper method) (postprocessor.grouper.NameGrouper method) (postprocessor.grouper.phGrouper method) (postprocessor.routines.plottingabc.BasePlotter method)

A

aggregate (class in postprocessor.core.multisignal.aggregate) aggregate_multisignals() (postprocessor.grouper.phGrouper method) aggregate_signal() (postprocessor.grouper.MultiGrouper method) aggregateParameters (class in postprocessor.core.multisignal.aggregate) align (class in postprocessor.core.multisignal.align)

alignParameters (class in postprocessor.core.multisignal.align) any_present() (in module postprocessor.core.processes.picker) autoreg (class in postprocessor.core.processes.autoreg) autoreg_periodogram() (postprocessor.core.processes.autoreg.autoreg method) autoregParameters (class in postprocessor.core.processes.autoreg)

B

BasePlotter (class in postprocessor.routines.plottingabc) boxplot() (in module postprocessor.routines.boxplot) bud_metric (class in postprocessor.core.processes.bud_metric) bud_metricParameters (class in postprocessor.core.processes.bud_metric)

buddings (class in postprocessor.core.processes.buddings) buddingsParameters (class in postprocessor.core.processes.buddings) butter (class in postprocessor.core.processes.butter) butterfilter() (postprocessor.core.processes.butter.butter method) butterParameters (class in postprocessor.core.processes.butter)

C

catch22 (class in postprocessor.core.processes.catch22) catch22Parameters (class in postprocessor.core.processes.catch22) classical_periodogram() (postprocessor.core.processes.fft.fft method) clean_tracks() (in module postprocessor.core.functions.tracks) compile_dmetrics() (postprocessor.compiler.ExperimentCompiler method) compile_fluorescence() (postprocessor.compiler.ExperimentCompiler method) compile_growth_metrics() (postprocessor.compiler.ExperimentCompiler method) compile_last_valid_tp() (postprocessor.compiler.ExperimentCompiler method)

compile_pertrap_metric() (postprocessor.compiler.ExperimentCompiler method) Compiler (class in postprocessor.compiler) concat_signal() (postprocessor.grouper.Grouper method) (postprocessor.grouper.MetaGrouper method) (postprocessor.grouper.NameGrouper method) (postprocessor.grouper.phGrouper method) concat_signal_ind() (in module postprocessor.grouper) crosscorr (class in postprocessor.core.multisignal.crosscorr) crosscorrParameters (class in postprocessor.core.multisignal.crosscorr)

D

datasets (postprocessor.grouper.Grouper property) (postprocessor.grouper.MetaGrouper property) (postprocessor.grouper.NameGrouper property) (postprocessor.grouper.phGrouper property) detrend (class in postprocessor.core.processes.detrend)

detrendParameters (class in postprocessor.core.processes.detrend) df_extend_nan() (in module postprocessor.core.multisignal.align) df_shift() (in module postprocessor.core.multisignal.align) dsignal (class in postprocessor.core.processes.dsignal) dsignalParameters (class in postprocessor.core.processes.dsignal) dummyplot() (in module postprocessor.core.export_pdf)

E

estimate_gr() (in module postprocessor.core.processes.gpsignal)

ExperimentCompiler (class in postprocessor.compiler)

F

fft (class in postprocessor.core.processes.fft) fftParameters (class in postprocessor.core.processes.fft) fill_trapcount() (postprocessor.compiler.ExperimentCompiler method) filter_signal_cells() (postprocessor.core.processes.bud_metric.bud_metric method) (postprocessor.core.processes.buddings.buddings method) (postprocessor.core.processes.lineageprocess.LineageProcess method) findpeaks (class in postprocessor.core.processes.findpeaks) findpeaksParameters (class in postprocessor.core.processes.findpeaks) fit_autoreg() (postprocessor.core.processes.autoreg.autoreg method) from_yaml() (postprocessor.core.multisignal.aggregate.aggregateParameters class method) (postprocessor.core.multisignal.align.alignParameters class method) (postprocessor.core.multisignal.crosscorr.crosscorrParameters class method) (postprocessor.core.multisignal.mi.miParameters class method) (postprocessor.core.processes.autoreg.autoregParameters class method) (postprocessor.core.processes.bud_metric.bud_metricParameters class method) (postprocessor.core.processes.buddings.buddingsParameters class method) (postprocessor.core.processes.butter.butterParameters class method) (postprocessor.core.processes.catch22.catch22Parameters class method) (postprocessor.core.processes.detrend.detrendParameters class method) (postprocessor.core.processes.dsignal.dsignalParameters class method) (postprocessor.core.processes.fft.fftParameters class method) (postprocessor.core.processes.findpeaks.findpeaksParameters class method) (postprocessor.core.processes.gpsignal.gpsignalParameters class method) (postprocessor.core.processes.knngraph.knngraphParameters class method) (postprocessor.core.processes.leiden.leidenParameters class method) (postprocessor.core.processes.lineageprocess.LineageProcessParameters class method) (postprocessor.core.processes.merger.mergerParameters class method) (postprocessor.core.processes.picker.pickerParameters class method) (postprocessor.core.processes.savgol.savgolParameters class method) (postprocessor.core.processes.standardscaler.standardscalerParameters class method) (postprocessor.core.processes.template.TemplateParameters class method) (postprocessor.core.processor.PostProcessorParameters class method)

G

generate_palette_map() (in module postprocessor.routines.plot_utils) get_avg_gr() (in module postprocessor.core.functions.tracks) get_avg_grs() (in module postprocessor.core.functions.tracks) get_bud_metric() (postprocessor.core.processes.bud_metric.bud_metric static method) get_closest_pairs() (in module postprocessor.core.functions.tracks) get_contiguous_pairs() (in module postprocessor.core.functions.tracks) get_dMetric() (in module postprocessor.core.functions.tracks) get_dMetric_wrap() (in module postprocessor.core.functions.tracks) get_joinable() (in module postprocessor.core.functions.tracks) get_joint_ids() (in module postprocessor.core.functions.tracks) get_last_i() (in module postprocessor.core.functions.tracks) get_means() (in module postprocessor.core.functions.tracks)

get_nodup_idx() (postprocessor.core.processes.picker.picker method) get_parameters() (in module postprocessor.core.abc) get_process() (in module postprocessor.core.abc) get_shared_ids() (postprocessor.compiler.ExperimentCompiler method) get_stages() (postprocessor.compiler.ExperimentCompiler method) get_tracks_ntps() (in module postprocessor.core.functions.tracks) get_val() (in module postprocessor.core.functions.tracks) get_vec_closest_pairs() (in module postprocessor.core.functions.tracks) gpsignal (class in postprocessor.core.processes.gpsignal) gpsignalParameters (class in postprocessor.core.processes.gpsignal) graph_prune() (in module postprocessor.core.processes.knngraph) Grouper (class in postprocessor.grouper) guess_metrics() (postprocessor.compiler.ExperimentCompiler method)

H

heatmap() (in module postprocessor.routines.heatmap)

histogram() (in module postprocessor.routines.histogram)

J

join_track_pair() (in module postprocessor.core.functions.tracks)

join_tracks() (in module postprocessor.core.functions.tracks)

K

knngraph (class in postprocessor.core.processes.knngraph)

knngraphParameters (class in postprocessor.core.processes.knngraph)

L

leiden (class in postprocessor.core.processes.leiden) leidenParameters (class in postprocessor.core.processes.leiden) LineageProcess (class in postprocessor.core.processes.lineageprocess) LineageProcessParameters (class in postprocessor.core.processes.lineageprocess)

load_data() (postprocessor.compiler.Compiler method) (postprocessor.compiler.ExperimentCompiler method) load_lineage() (postprocessor.core.processes.bud_metric.bud_metric method) load_test_dset() (in module postprocessor.core.functions.tracks) localid_to_idx() (in module postprocessor.core.functions.tracks)

M

max_ind_vertex_sets() (postprocessor.core.processes.picker.picker static method) max_nonstop_ntps() (in module postprocessor.core.functions.tracks) max_ntps() (in module postprocessor.core.functions.tracks) mb_guess() (postprocessor.core.processes.picker.picker method) mean_plot() (in module postprocessor.routines.mean_plot) median_plot() (in module postprocessor.routines.median_plot) merge_tracks() (in module postprocessor.core.functions.tracks) merger (class in postprocessor.core.processes.merger) mergerParameters (class in postprocessor.core.processes.merger) Meta (class in postprocessor.compiler) MetaGrouper (class in postprocessor.grouper) mi (class in postprocessor.core.multisignal.mi) miParameters (class in postprocessor.core.multisignal.mi) module postprocessor postprocessor.compiler postprocessor.core postprocessor.core.abc postprocessor.core.export_pdf postprocessor.core.functions postprocessor.core.functions.tracks postprocessor.core.lineageprocess postprocessor.core.multisignal postprocessor.core.multisignal.aggregate postprocessor.core.multisignal.align postprocessor.core.multisignal.crosscorr postprocessor.core.multisignal.mi postprocessor.core.processes postprocessor.core.processes.autoreg postprocessor.core.processes.bud_metric postprocessor.core.processes.buddings postprocessor.core.processes.butter postprocessor.core.processes.catch22 postprocessor.core.processes.detrend postprocessor.core.processes.dsignal postprocessor.core.processes.fft postprocessor.core.processes.findpeaks postprocessor.core.processes.gpsignal postprocessor.core.processes.knngraph postprocessor.core.processes.leiden postprocessor.core.processes.lineageprocess postprocessor.core.processes.merger postprocessor.core.processes.picker postprocessor.core.processes.savgol postprocessor.core.processes.standardscaler postprocessor.core.processes.template postprocessor.core.processor postprocessor.grouper postprocessor.routines postprocessor.routines.boxplot postprocessor.routines.heatmap postprocessor.routines.histogram postprocessor.routines.mean_plot postprocessor.routines.median_plot postprocessor.routines.plot_utils postprocessor.routines.plottingabc postprocessor.routines.single_birth_plot postprocessor.routines.single_plot

MultiGrouper (class in postprocessor.grouper)

N

NameGrouper (class in postprocessor.grouper)

non_uniform_savgol() (in module postprocessor.core.processes.savgol) ntraps (postprocessor.compiler.ExperimentCompiler property)

O

optimise_ar_order() (postprocessor.core.processes.autoreg.autoreg method)

P

PageOrganiser (class in postprocessor.compiler) phGrouper (class in postprocessor.grouper) pick_mother() (postprocessor.core.processor.PostProcessor static method) picker (class in postprocessor.core.processes.picker) pickerParameters (class in postprocessor.core.processes.picker) plot() (postprocessor.routines.plottingabc.BasePlotter method) plot_joinable() (in module postprocessor.core.functions.tracks) PostProcessABC (class in postprocessor.core.abc) postprocessor module PostProcessor (class in postprocessor.core.processor) postprocessor.compiler module postprocessor.core module postprocessor.core.abc module postprocessor.core.export_pdf module postprocessor.core.functions module postprocessor.core.functions.tracks module postprocessor.core.lineageprocess module postprocessor.core.multisignal module postprocessor.core.multisignal.aggregate module postprocessor.core.multisignal.align module postprocessor.core.multisignal.crosscorr module postprocessor.core.multisignal.mi module postprocessor.core.processes module postprocessor.core.processes.autoreg module postprocessor.core.processes.bud_metric module postprocessor.core.processes.buddings module postprocessor.core.processes.butter module postprocessor.core.processes.catch22 module postprocessor.core.processes.detrend module

postprocessor.core.processes.dsignal module postprocessor.core.processes.fft module postprocessor.core.processes.findpeaks module postprocessor.core.processes.gpsignal module postprocessor.core.processes.knngraph module postprocessor.core.processes.leiden module postprocessor.core.processes.lineageprocess module postprocessor.core.processes.merger module postprocessor.core.processes.picker module postprocessor.core.processes.savgol module postprocessor.core.processes.standardscaler module postprocessor.core.processes.template module postprocessor.core.processor module postprocessor.grouper module postprocessor.routines module postprocessor.routines.boxplot module postprocessor.routines.heatmap module postprocessor.routines.histogram module postprocessor.routines.mean_plot module postprocessor.routines.median_plot module postprocessor.routines.plot_utils module postprocessor.routines.plottingabc module postprocessor.routines.single_birth_plot module postprocessor.routines.single_plot module PostProcessorParameters (class in postprocessor.core.processor)

R

rec_bottom() (in module postprocessor.core.functions.tracks) Reporter (class in postprocessor.compiler) run() (postprocessor.core.multisignal.align.align method) (postprocessor.core.multisignal.crosscorr.crosscorr method) (postprocessor.core.multisignal.mi.mi method) (postprocessor.core.processes.autoreg.autoreg method) (postprocessor.core.processes.butter.butter method) (postprocessor.core.processes.detrend.detrend method) (postprocessor.core.processes.fft.fft method) (postprocessor.core.processes.findpeaks.findpeaks method) (postprocessor.core.processes.knngraph.knngraph method) (postprocessor.core.processes.standardscaler.standardscaler method)

run_prepost() (postprocessor.core.processor.PostProcessor method)

S

savgol (class in postprocessor.core.processes.savgol) savgolParameters (class in postprocessor.core.processes.savgol) sigtable (postprocessor.grouper.MultiGrouper property) sigtable_plot() (postprocessor.grouper.MultiGrouper method) single_birth_plot() (in module postprocessor.routines.single_birth_plot)

single_plot() (in module postprocessor.routines.single_plot) solve_matrices() (in module postprocessor.core.functions.tracks) solve_matrices_wrap() (in module postprocessor.core.functions.tracks) solve_matrix() (in module postprocessor.core.functions.tracks) standardscaler (class in postprocessor.core.processes.standardscaler) standardscalerParameters (class in postprocessor.core.processes.standardscaler)

T

Template (class in postprocessor.core.processes.template) TemplateParameters (class in postprocessor.core.processes.template) to_dict() (postprocessor.core.multisignal.aggregate.aggregateParameters method) (postprocessor.core.multisignal.align.alignParameters method) (postprocessor.core.multisignal.crosscorr.crosscorrParameters method) (postprocessor.core.multisignal.mi.miParameters method) (postprocessor.core.processes.autoreg.autoregParameters method) (postprocessor.core.processes.bud_metric.bud_metricParameters method) (postprocessor.core.processes.buddings.buddingsParameters method) (postprocessor.core.processes.butter.butterParameters method) (postprocessor.core.processes.catch22.catch22Parameters method) (postprocessor.core.processes.detrend.detrendParameters method) (postprocessor.core.processes.dsignal.dsignalParameters method) (postprocessor.core.processes.fft.fftParameters method) (postprocessor.core.processes.findpeaks.findpeaksParameters method) (postprocessor.core.processes.gpsignal.gpsignalParameters method) (postprocessor.core.processes.knngraph.knngraphParameters method) (postprocessor.core.processes.leiden.leidenParameters method) (postprocessor.core.processes.lineageprocess.LineageProcessParameters method) (postprocessor.core.processes.merger.mergerParameters method) (postprocessor.core.processes.picker.pickerParameters method) (postprocessor.core.processes.savgol.savgolParameters method) (postprocessor.core.processes.standardscaler.standardscalerParameters method) (postprocessor.core.processes.template.TemplateParameters method) (postprocessor.core.processor.PostProcessorParameters method)

to_yaml() (postprocessor.core.multisignal.aggregate.aggregateParameters method) (postprocessor.core.multisignal.align.alignParameters method) (postprocessor.core.multisignal.crosscorr.crosscorrParameters method) (postprocessor.core.multisignal.mi.miParameters method) (postprocessor.core.processes.autoreg.autoregParameters method) (postprocessor.core.processes.bud_metric.bud_metricParameters method) (postprocessor.core.processes.buddings.buddingsParameters method) (postprocessor.core.processes.butter.butterParameters method) (postprocessor.core.processes.catch22.catch22Parameters method) (postprocessor.core.processes.detrend.detrendParameters method) (postprocessor.core.processes.dsignal.dsignalParameters method) (postprocessor.core.processes.fft.fftParameters method) (postprocessor.core.processes.findpeaks.findpeaksParameters method) (postprocessor.core.processes.gpsignal.gpsignalParameters method) (postprocessor.core.processes.knngraph.knngraphParameters method) (postprocessor.core.processes.leiden.leidenParameters method) (postprocessor.core.processes.lineageprocess.LineageProcessParameters method) (postprocessor.core.processes.merger.mergerParameters method) (postprocessor.core.processes.picker.pickerParameters method) (postprocessor.core.processes.savgol.savgolParameters method) (postprocessor.core.processes.standardscaler.standardscalerParameters method) (postprocessor.core.processes.template.TemplateParameters method) (postprocessor.core.processor.PostProcessorParameters method) traploc_diffs() (postprocessor.compiler.ExperimentCompiler static method)

U

update() (postprocessor.core.multisignal.aggregate.aggregateParameters method) (postprocessor.core.multisignal.align.alignParameters method) (postprocessor.core.multisignal.crosscorr.crosscorrParameters method) (postprocessor.core.multisignal.mi.miParameters method) (postprocessor.core.processes.autoreg.autoregParameters method) (postprocessor.core.processes.bud_metric.bud_metricParameters method) (postprocessor.core.processes.buddings.buddingsParameters method) (postprocessor.core.processes.butter.butterParameters method) (postprocessor.core.processes.catch22.catch22Parameters method) (postprocessor.core.processes.detrend.detrendParameters method) (postprocessor.core.processes.dsignal.dsignalParameters method) (postprocessor.core.processes.fft.fftParameters method) (postprocessor.core.processes.findpeaks.findpeaksParameters method) (postprocessor.core.processes.gpsignal.gpsignalParameters method) (postprocessor.core.processes.knngraph.knngraphParameters method) (postprocessor.core.processes.leiden.leidenParameters method) (postprocessor.core.processes.lineageprocess.LineageProcessParameters method) (postprocessor.core.processes.merger.mergerParameters method) (postprocessor.core.processes.picker.pickerParameters method) (postprocessor.core.processes.savgol.savgolParameters method) (postprocessor.core.processes.standardscaler.standardscalerParameters method) (postprocessor.core.processes.template.TemplateParameters method) (postprocessor.core.processor.PostProcessorParameters method)