f9e64d3e6d463be1afb36fce529771eb *DESCRIPTION
1ebbd3e34237af26da5dc08a4e440464 *LICENSE
272b3e6d12063722b04f307f921121c5 *NAMESPACE
2f79efabf7f0c16e865afa35a7817285 *NEWS.md
88bd4da0e140eb22e7d9034db9a64e53 *R/HMDB_mapper_vec.R
8b61c11a861a3d7cf76020042c09bc75 *R/binarize_with_sign.R
a4fb19073459e16ab31ee86947f62d7c *R/check_COSMOS_inputs.R
4913b2cce4bdbf2e645960577e84a052 *R/check_gene_names.R
5c04258158b4e73f6f8d50df20774695 *R/check_inputs_CARNIVAL.R
0731f64d0370165288a10cc9f08398ea *R/check_network_data_coverage.R
6c541e0f7fe68f4a256c5ef5ebac4e68 *R/compress_same_children.R
5401c2fe0cd2f1122a6548bdb5f8e435 *R/cosmos_data.R
a07494f1d619e7c5dee4fe3de5dc83b4 *R/decoupleRnival.R
2ffe8b5085b884202d4642f903d4eac6 *R/default_CARNIVAL_options.R
65c1f8518cfdadd203ac2e1694145592 *R/discretize_vector.R
c1e2b1e4cc1cce4fa8dfc3733a2c0e66 *R/display_node_neighboorhood.R
1dfb75f9d44e3df385cc1989072514e6 *R/filter_input_nodes_not_in_pkn.R
26824b18407ba36baa24e93cd099463b *R/filter_pkn_expressed_genes.R
9fe367a57f24f68a88f2c3be2c8b65e6 *R/filter_transcriptional_regulations.R
ca6d557db0e5de3e2bce71f304a630c4 *R/format_COSMOS_results.R
fb944c1fb961e0006556696f49926c77 *R/get_TF_activity_from_CARNIVAL.R
2a2a8c62ec768f219aa0d83ed78ec69a *R/keep_downstream_neighbours.R
70812c9c46f3c17dd2e3ac418214d290 *R/limit_string_vec.R
69dc6bc7400c96d604805c03a9b86940 *R/load_tf_regulon_dorothea.R
55e971487a191f45049b03f9c12cbe30 *R/meta_network.R
48ad57a3e6c19f9870ac044c3c4bbed2 *R/prepare_metab_inputs.R
3560ae97bda6a73ae57aa24873b5a2fa *R/preprocess_COSMOS.R
748b5e86ef062998d4ba9a77e5673a15 *R/preprocess_COSMOS_metabolism_to_signaling.R
44acbce7b158fd52a529c613246335fc *R/preprocess_COSMOS_signaling_to_metabolism.R
9d295c9c5a5352322758864b76b4cb31 *R/process_CARNIVAL_results.R
d977c87fc9936e6ed2869e4c538049c8 *R/runCARNIVAL_wrapper.R
f8a7e8c3137c59928d4d281b9150e922 *R/run_COSMOS_metabolism_to_signaling.R
04c5797b41b0c54f4e4b6791218418dc *R/run_COSMOS_signaling_to_metabolism.R
3020a440f7e99678bca0aae2b4c2faed *R/support_ORA.R
ef832b39dc124c8821b28315a9bd4ffd *R/sysdata.rda
65e49240413fa7f4cfeaa5a2cc62496b *R/toy_RNA.R
f11bdfb68ff78ee4601e75cfb6edd968 *R/toy_metabolic_input.R
ef7b29f95b52fd91f373671b9118ad15 *R/toy_network.R
d4afe44f03404c95d8a75e9106eb4287 *R/toy_signaling_input.R
e11a113b4377e2d7c8ad7ea57995ea58 *README.md
736dd9adce24e8d0620a0311e0d8c88e *build/vignette.rds
a70dcf1d9376f6e1051173dcda835101 *data/HMDB_mapper_vec.RData
d17c1976dde341fcd6d4a20dc42bbd55 *data/datalist
60c30310020aa4c47e150450d0c42b4d *data/meta_network.RData
87caac76c6a5db52038d3eca8ed06b88 *data/toy_RNA.RData
dcdc2c7e1591549469a8198b7cd61947 *data/toy_metabolic_input.RData
67e87d535c43015952f1ca5445f2ea9f *data/toy_network.RData
37378e93b7a1074755cb08eba47a6d83 *data/toy_signaling_input.RData
c75114aa35a775feb9667e6283d56484 *inst/CITATION
c1576d3ad5374e42db69ae10d6dcb9fa *inst/doc/tutorial.R
4ff3b71a04b9b4a22a3dbf9131a05ea8 *inst/doc/tutorial.Rmd
d3e78fccf484fa0e7d31d0dd135349fb *inst/doc/tutorial.html
1e3c3c9cc526aaf1bb33ab6269d83068 *man/HMDB_mapper_vec.Rd
acc9883ea44ce3263c84ddf50c64e550 *man/compress_same_children.Rd
9520385a43d5e405ec5814e69d78f5e4 *man/cosmos_data.Rd
4821f4e8ffba3775c7c5cc16fd5087e4 *man/decompress_solution_network.Rd
91ae66a551182ee36379bb734b270819 *man/decoupleRnival.Rd
b2534ccda466cfa4574d02c5660d82cc *man/default_CARNIVAL_options.Rd
12238acc7ca88b0bc56e20867c1089de *man/display_node_neighboorhood.Rd
0abc7e9f486bbaef7e2b39a1371a5011 *man/extract_nodes_for_ORA.Rd
3210de10c4107e9224f79e21a97b433f *man/figures/graphical_abstract.png
fa19a2978c4b1585ab623e1cbc27953c *man/figures/intro_data.png
dc5d9e4b1dec92c5dfaee86d04da39df *man/figures/logo.png
f8b4c5ecc699526c05dff4329a70b48a *man/figures/summary.png
5000cea3714699cf9575e9c43d222f6d *man/filter_incohrent_TF_target.Rd
cfd3cb136b2503c2870a9df9541b3199 *man/format_COSMOS_res.Rd
d5d9048630954e8cf2e1201a4872c959 *man/gmt_to_dataframe.Rd
11c8d577a700c2f5cfc8ef80e190b1c6 *man/load_tf_regulon_dorothea.Rd
79ae54f3e9be802ab35c2bc384f2e184 *man/meta_network.Rd
702bf9222041851c8f0c19d16bcd9e71 *man/meta_network_cleanup.Rd
44e812fbe42cf98b87f3ee1a2c48fb01 *man/prepare_metab_inputs.Rd
d9783106003b298cf1b75bb6840eaccc *man/preprocess_COSMOS_metabolism_to_signaling.Rd
0df06d87f4d07975cfc73b1423ce3d31 *man/preprocess_COSMOS_signaling_to_metabolism.Rd
c9760a8a316921b21598c06643d5cd9b *man/print.cosmos_data.Rd
90c952a6a9a121922be2e10d695a16f2 *man/reduce_solution_network.Rd
858c23b8b064ef3183bfd33b13a4691b *man/run_COSMOS_metabolism_to_signaling.Rd
0cdee4b045f9fbe5560208faf3cf6170 *man/run_COSMOS_signaling_to_metabolism.Rd
791bfe4384229a14c1f6016ba41d4f27 *man/toy_RNA.Rd
9ff6f336c3c9be8e87bad9d90f584cdf *man/toy_metabolic_input.Rd
3c1994a5910143cd744c9178f596ba1f *man/toy_network.Rd
6017c89e3fcfc814560a1da7eb1fd916 *man/toy_signaling_input.Rd
4797c5beb09a3532f1b66d37d7ae83ce *tests/testthat.R
116ab752687d76d29570e34c51259613 *tests/testthat/test-check_COSMOS_inputs.R
1bbbe7fc40cbc3ef5f6daa2d5d4faea2 *tests/testthat/test-cosmos_data.R
aa13a7dc9a0941cd99715a1fe397b6d5 *tests/testthat/test-load_tf_regulon_dorothea.R
27f676a60f27eb6fa33632b6a8af5ee3 *tests/testthat/test-preprocess_COSMOS.R
897c8b724af66c155869df8d3239bcd0 *tests/testthat/test-run_COSMOS_metabolism_to_signaling.R
a0fa686b0e6b554697bb5315507d1c9e *tests/testthat/test-run_COSMOS_signaling_to_metabolism.R
4ff3b71a04b9b4a22a3dbf9131a05ea8 *vignettes/tutorial.Rmd
