ed160210bf436a53d75450ded364e529 *DESCRIPTION
637e88461df3e5b7224845189cb3f31d *LICENSE
87a2639299bb8a715f8d7f3371e28089 *NAMESPACE
ecec49c05c519ff0764fd729febf3855 *NEWS.md
d5cc29eb592894bd0f34046b3b332ee3 *R/cluster_pws.R
bece9e695d6dff91a37b885bd4222531 *R/data.R
d04252e389d1e6fe5ab9af480650b9c4 *R/enrichment.R
983133b43f2fe81d59588d69e905547d *R/input_processing.R
c460944417f7f004cfe6bc380cc714d2 *R/parseActive.R
d92b472702dcdcee964918062aaae357 *R/pathfindR.R
870bdc92c07f8dbcaa672808046d333e *R/pathmap.R
ceea1f38ef6cf39ad6b7e8069e339d11 *R/wrapper.R
70e5e163be5f829fde0ff8ddf4aed78a *build/vignette.rds
89e18386146e112e0b23c2b2f07186cd *data/RA_input.rda
4e8cd2b3e7a7ece26ffdfa216e9f7a71 *data/RA_output.rda
d311f907f99b95103c9e80dc7ab16b53 *data/biocarta_genes.rda
07530d05a1d8b6d5b12b0ed995ccbeb4 *data/biocarta_pathways.rda
7eef290585c63100c2245d73d6069060 *data/go_bp_genes.rda
2c8dfe82aaac60ed996ba7ea8c975323 *data/go_bp_pathways.rda
af923135a925f7e85169b0b7f9495a6e *data/go_cc_genes.rda
d1f8269113684b179b26fc48bf4c71de *data/go_cc_pathways.rda
11ab7ec716907decc2c14cc8b4b05161 *data/go_mf_genes.rda
ee930b376c0f1aa755d0f3bb4b342183 *data/go_mf_pathways.rda
488a984e0faa67204bf1b6a91fe01f48 *data/kegg_genes.rda
015c9826df383d727432d141eb076c7d *data/kegg_pathways.rda
c06ac5d36c6ae98eb8fd79fad6cd2f9c *data/reactome_genes.rda
e13b8c35d084794bf9695d3dde0aad19 *data/reactome_pathways.rda
759ff6a955637632be9f38df89ea7abe *inst/CITATION
28804e0388465b30135cc08f2e38c5c7 *inst/doc/pathfindr_vignette.R
bb8cac1ebf34c3428b38a4f7962d88b6 *inst/doc/pathfindr_vignette.Rmd
b535fed588ce04e93febd92465805b4a *inst/doc/pathfindr_vignette.html
9b65fa19fd39f1149773f43320a6b715 *inst/extdata/Biogrid.sif
c804db2e6802b505a35236621f393543 *inst/extdata/GeneMania.sif
7d1a2a950fa4f1d00af771b59388c804 *inst/extdata/IntAct.sif
3e8182b384b72c96124777f48102d274 *inst/extdata/KEGG.sif
a23abda2700faa198d10b4ad270fedee *inst/extdata/resultActiveSubnetworkSearch.txt
872f734518f4acd2c8e0aadcf7dd614c *inst/java/ActiveSubnetworkSearch.jar
cba4610f9829147243902e3dcc6cf402 *inst/rmd/all_pathways.Rmd
2554f35c07b902915b4b405f63d585da *inst/rmd/clustering.Rmd
826b785aea328d67a2e3db4d12e2d44a *inst/rmd/genes_table.Rmd
b80db9a05c60a7a91af33a56afb2944c *inst/rmd/results.Rmd
5aefed1e6692c2d69686853966feb72d *java/ActiveSubnetworkSearchAlgorithms/ActiveSubnetworkSearch.java
439593bca03ca14e803bc31faa18deb0 *java/ActiveSubnetworkSearchAlgorithms/GAIndividual.java
4fc331bf185741e6851c5f9bba4f1a77 *java/ActiveSubnetworkSearchAlgorithms/GeneticAlgorithm.java
c489bd5c01cf42e159e1ee3809ac3700 *java/ActiveSubnetworkSearchAlgorithms/GreedySearch.java
5e71444c2eba521fd96893f9cb200b87 *java/ActiveSubnetworkSearchAlgorithms/SimulatedAnnealing.java
f0aae5d87de27c5883efa7f10a4f0764 *java/ActiveSubnetworkSearchMisc/Gaussian.java
1de145f422767954ae5000541addf3a2 *java/ActiveSubnetworkSearchMisc/ScoreCalculations.java
b8cea43205699d2ced1cdac423e32baa *java/ActiveSubnetworkSearchMisc/Subnetwork.java
5577bdbec43ecfb930293c24a5c3ef2e *java/ActiveSubnetworkSearchMisc/ZStatistics.java
9e607a52c81e197f7ab1025b5a3202b1 *java/Application/AppActiveSubnetworkSearch.java
ee4bd21bb3909f75dce8cd63c620b483 *java/Application/Parameters.java
d4315317f84edad39baa6d6ffba98b50 *java/File/ExperimentFileReader.java
4d004757ba404d6c16b73bfbaff9fef9 *java/File/SIFReader.java
91ad54d743857dd002a704cf50159e0d *java/Network/Network.java
f516e3c30a9953abaf0f48ab54de9a9e *java/Network/Node.java
fb9a95c51d77dbb3580f57c63c9582ea *java/Network/SubnetworkFinder.java
b60f08affa418133463b0ca2aa24cfdf *man/RA_input.Rd
aa154b6ebeee7b6e13b2a8585aa9e238 *man/RA_output.Rd
387abe02f6effe6ad385e2a23406cf6a *man/biocarta_genes.Rd
6350c2b26a7f2ddbc7b95ea417f4a433 *man/biocarta_pathways.Rd
f468b76bb22b6f26f1768dfb117d2eef *man/choose_clusters.Rd
38d5ea776471d2d2fb7ef6a9fa6ee854 *man/cluster_pathways.Rd
c8ebb6447aff39e27c11809cb453b78b *man/enrichment.Rd
047fd377f9600e3fd8954fd8927b5776 *man/go_bp_genes.Rd
1148a0ed0f2e1bbac2615e6164908065 *man/go_bp_pathways.Rd
8bd76eda6e6414975fdd22e67e3a58bc *man/go_cc_genes.Rd
04f61793d1efc0c10170bd0419909fba *man/go_cc_pathways.Rd
5829b330d157fe3b730bfcaaf9d4656b *man/go_mf_genes.Rd
2ce039a78afc16e9aaa4ac13c2546dfb *man/go_mf_pathways.Rd
b9e03051994c62dd48a4d35ad5293565 *man/input_processing.Rd
a06e9d7d2c44bf4f8a13a09b176ff0f4 *man/input_testing.Rd
c69d78fc2a2fceba75de2c4f8abe9c60 *man/kegg_genes.Rd
c84285a998f040086886a5a2728e1a4b *man/kegg_pathways.Rd
15a9dc6e2bb0d10d8f3a37993c102cf6 *man/parseActiveSnwSearch.Rd
fe1eb71a86819302ba960d10f0ef9f0d *man/pathfindR.Rd
524d2df656d82f54eb6ddd3cb3cdc30d *man/pathmap.Rd
6084c4eb5b137df4955b80cbe97a5b59 *man/reactome_genes.Rd
cb4ec25a1f22de1bbfeb7bcbdf26d79c *man/reactome_pathways.Rd
eefdfc14dd06ccbc55da9aaf41b6ef4f *man/return_pin_path.Rd
8208add6c064705a7a6abdb7a9d1764c *man/run_pathfindR.Rd
b4d99d5c04387ff6266ebf16d90269eb *vignettes/pathfindr.png
bb8cac1ebf34c3428b38a4f7962d88b6 *vignettes/pathfindr_vignette.Rmd
6f5382d8ed5fa6a83da401e201b96dd1 *vignettes/pw_clustering.png
