Index

Symbols

--all_nodes clep-embedding-kge command line option --alpha clep-sample-scoring-limma command line option --control clep-sample-scoring-limma command line option clep-sample-scoring-radical-search command line option clep-sample-scoring-z-score command line option --control_based clep-sample-scoring-radical-search command line option --cv clep-classify command line option --data clep-classify command line option clep-embedding-evaluate command line option clep-embedding-generate-network command line option clep-embedding-kge command line option clep-sample-scoring-limma command line option clep-sample-scoring-radical-search command line option clep-sample-scoring-ssgsea command line option clep-sample-scoring-z-score command line option --design clep-embedding-kge command line option clep-sample-scoring-limma command line option clep-sample-scoring-radical-search command line option clep-sample-scoring-ssgsea command line option clep-sample-scoring-z-score command line option --gmt clep-embedding-generate-network command line option --gs clep-sample-scoring-ssgsea command line option --intersect_thr clep-embedding-generate-network command line option --jaccard_thr clep-embedding-generate-network command line option --kg clep-embedding-generate-network command line option --label clep-embedding-evaluate command line option --method clep-embedding-generate-network command line option clep-sample-scoring-limma command line option

--metrics clep-classify command line option --model clep-classify command line option --model_config clep-embedding-kge command line option --network_folder clep-embedding-generate-network command line option --optimizer clep-classify command line option --out clep-classify command line option clep-embedding-generate-network command line option clep-embedding-kge command line option clep-sample-scoring-limma command line option clep-sample-scoring-radical-search command line option clep-sample-scoring-ssgsea command line option clep-sample-scoring-z-score command line option --randomize clep-classify command line option --ret_summary clep-embedding-generate-network command line option clep-sample-scoring-radical-search command line option --threshold clep-sample-scoring-radical-search command line option clep-sample-scoring-z-score command line option --train_size clep-embedding-kge command line option --validation_size clep-embedding-kge command line option -cb clep-sample-scoring-radical-search command line option -m clep-classify command line option clep-embedding-kge command line option -rs clep-embedding-generate-network command line option clep-sample-scoring-radical-search command line option

_

_weighted_splitter() (in module clep.embedding.kge)

C

clep module clep-classify command line option --cv --data --metrics --model --optimizer --out --randomize -m clep-embedding-evaluate command line option --data --label clep-embedding-generate-network command line option --data --gmt --intersect_thr --jaccard_thr --kg --method --network_folder --out --ret_summary -rs clep-embedding-kge command line option --all_nodes --data --design --model_config --out --train_size --validation_size -m

clep-sample-scoring-limma command line option --alpha --control --data --design --method --out clep-sample-scoring-radical-search command line option --control --control_based --data --design --out --ret_summary --threshold -cb -rs clep-sample-scoring-ssgsea command line option --data --design --gs --out clep-sample-scoring-z-score command line option --control --data --design --out --threshold

D

do_classification() (in module clep.classification.classify) do_graph_gen() (in module clep.embedding.network_generator) do_kge() (in module clep.embedding.kge)

do_limma() (in module clep.sample_scoring.limma) do_radical_search() (in module clep.sample_scoring.radical_search) do_ssgsea() (in module clep.sample_scoring.ssgsea) do_z_score() (in module clep.sample_scoring.z_score)

M

module clep