Index

Symbols

--constructor cli-run command line option --exp-comp-mode cli-run command line option --log-scale cli-run command line option --max-scale cli-run command line option --method cli-run command line option --min-scale cli-run command line option --n-NVI cli-run command line option --n-scale cli-run command line option --n-tries cli-run command line option --n-workers cli-run command line option --no-NVI cli-run command line option

--no-postprocessing cli-run command line option --no-spectral-gap cli-run command line option --no-ttprime cli-run command line option --no-with-optimal-scales cli-run command line option --NVI cli-run command line option --postprocessing cli-run command line option --result-file cli-run command line option --spectral-gap cli-run command line option --tqdm-disable cli-run command line option --ttprime cli-run command line option --with-optimal-scales cli-run command line option

A

adjacency_ (in module pygenstability.DataClustering)

C

cli-plot_communities command line option GRAPH_FILE RESULTS_FILE cli-plot_scan command line option RESULTS_FILE cli-run command line option --constructor --exp-comp-mode --log-scale --max-scale --method --min-scale --n-NVI --n-scale --n-tries --n-workers --no-NVI --no-postprocessing --no-spectral-gap --no-ttprime --no-with-optimal-scales --NVI --postprocessing --result-file --spectral-gap --tqdm-disable --ttprime --with-optimal-scales GRAPH_FILE

Constructor (class in pygenstability.constructors) constructor_continuous_combinatorial (class in pygenstability.constructors) constructor_continuous_normalized (class in pygenstability.constructors) constructor_directed (class in pygenstability.constructors) constructor_linearized (class in pygenstability.constructors) constructor_linearized_directed (class in pygenstability.constructors) constructor_signed_combinatorial (class in pygenstability.constructors) constructor_signed_modularity (class in pygenstability.constructors)

E

evaluate_NVI() (in module pygenstability.pygenstability)

G

get_data() (pygenstability.constructors.Constructor method) (pygenstability.constructors.constructor_signed_combinatorial method)

GRAPH_FILE cli-plot_communities command line option cli-run command line option

I

identify_optimal_scales() (in module pygenstability.optimal_scales)

L

labels_ (in module pygenstability.DataClustering)

load_constructor() (in module pygenstability.constructors) load_results() (in module pygenstability.io)

M

module pygenstability.app pygenstability.constructors pygenstability.DataClustering pygenstability.io pygenstability.optimal_scales pygenstability.plotting pygenstability.pygenstability

P

plot_clustered_adjacency() (in module pygenstability.plotting) plot_communities() (in module pygenstability.plotting) plot_communities_matrix() (in module pygenstability.plotting) plot_optimal_partitions() (in module pygenstability.plotting) plot_scan() (in module pygenstability.plotting) plot_scan_plotly() (in module pygenstability.plotting) plot_scan_plt() (in module pygenstability.plotting) plot_single_partition() (in module pygenstability.plotting) prepare() (pygenstability.constructors.Constructor method) (pygenstability.constructors.constructor_continuous_combinatorial method) (pygenstability.constructors.constructor_continuous_normalized method) (pygenstability.constructors.constructor_directed method) (pygenstability.constructors.constructor_linearized method) (pygenstability.constructors.constructor_linearized_directed method) (pygenstability.constructors.constructor_signed_combinatorial method) (pygenstability.constructors.constructor_signed_modularity method)

pygenstability.app module pygenstability.constructors module pygenstability.DataClustering module pygenstability.io module pygenstability.optimal_scales module pygenstability.plotting module pygenstability.pygenstability module

R

results_ (in module pygenstability.DataClustering) RESULTS_FILE cli-plot_communities command line option cli-plot_scan command line option

run() (in module pygenstability.pygenstability)

S

save_results() (in module pygenstability.io)