CLEP
stable
Contents:
Welcome to CLEP’s documentation!
How to use CLEP
Command Line Interface
Developmental Guide
CLEP
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Index
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Index
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D
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--all_nodes
clep-embedding-kge command line option
--alpha <alpha>
clep-sample-scoring-limma command line option
--control <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 <cv>
clep-classify command line option
--data <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 <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 <gmt>
clep-embedding-generate-network command line option
--gs <gs>
clep-sample-scoring-ssgsea command line option
--intersect_thr <intersect_thr>
clep-embedding-generate-network command line option
--jaccard_thr <jaccard_thr>
clep-embedding-generate-network command line option
--kg <kg>
clep-embedding-generate-network command line option
--label <label>
clep-embedding-evaluate command line option
--method <method>
clep-embedding-generate-network command line option
clep-sample-scoring-limma command line option
--metrics <metrics>
clep-classify command line option
--model <model>
clep-classify command line option
--model_config <model_config>
clep-embedding-kge command line option
--network_folder <network_folder>
clep-embedding-generate-network command line option
--optimizer <optimizer>
clep-classify command line option
--out <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 <threshold>
clep-sample-scoring-radical-search command line option
clep-sample-scoring-z-score command line option
--train_size <train_size>
clep-embedding-kge command line option
--validation_size <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 <cv>
--data <data>
--metrics <metrics>
--model <model>
--optimizer <optimizer>
--out <out>
--randomize
-m
clep-embedding-evaluate command line option
--data <data>
--label <label>
clep-embedding-generate-network command line option
--data <data>
--gmt <gmt>
--intersect_thr <intersect_thr>
--jaccard_thr <jaccard_thr>
--kg <kg>
--method <method>
--network_folder <network_folder>
--out <out>
--ret_summary
-rs
clep-embedding-kge command line option
--all_nodes
--data <data>
--design <design>
--model_config <model_config>
--out <out>
--train_size <train_size>
--validation_size <validation_size>
-m
clep-sample-scoring-limma command line option
--alpha <alpha>
--control <control>
--data <data>
--design <design>
--method <method>
--out <out>
clep-sample-scoring-radical-search command line option
--control <control>
--control_based
--data <data>
--design <design>
--out <out>
--ret_summary
--threshold <threshold>
-cb
-rs
clep-sample-scoring-ssgsea command line option
--data <data>
--design <design>
--gs <gs>
--out <out>
clep-sample-scoring-z-score command line option
--control <control>
--data <data>
--design <design>
--out <out>
--threshold <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
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