aa8ae8679261456e93d53a8c070ad9f0 *DESCRIPTION
ed1caae83f0525c9c196371ce0498638 *LICENSE
5cb547e1e6bb673f5a80c5d740ec7465 *NAMESPACE
26659b3f1d206bc1b861da7aed453260 *NEWS.md
3c3eea05fd310f40a7b4c7c3f783319b *R/GeDi-data.R
278fbb80b47ea8354606d5d828611b99 *R/app.R
fcd24ecb74953ce0052bd7a981c573af *R/clustering.R
e2306aec70f6af52199b2c8c0eb86cf0 *R/clustering_wordcloud.R
16b2ef569f8b266cdf801ac647c0a2f1 *R/deprecated.R
c7820351bcf8354207543773e5b0ca69 *R/distance_dendro.R
9af24496ca4f548801222cbcdc3ed284 *R/distance_heatmap.R
e9d60ea7cbf6ba78257a3e900d661324 *R/download_PPI.R
11ecdb597bdd46647580ea0f0b0034b8 *R/go_Similarity.R
ad64046330fb0b99747864c482a91853 *R/gs_Graph.R
a5f8d59b412fcb8cc9010036e05f6bba *R/gs_histogram.R
fd0b6cfc0f18efb3ca722fff3f85acdb *R/jaccard_Scoring.R
8ff82ae6d355fecaabe59c30e89146d3 *R/kappa_Scoring.R
3285ad90b832b7f1be9dcd880a14fd9f *R/meetmin_Scoring.R
1e4746a3dd02dfa56d21cf0613364089 *R/pMM_Scoring.R
f9e4ae740df2ab5b93f6ea8128ed1407 *R/sorensen_dice_Scoring.R
180879cff925a505b7f7fd267d36b957 *R/utils.R
d25d8fae2885c358799cf2c9043b4985 *README.md
a308b078af6350dfd0acca702986fe72 *build/vignette.rds
1f6081ab22cec717b1a6831bc85d7b4c *data/macrophage_KEGG_example.RData
b3926af373b9abec25ce17751086fc58 *data/macrophage_Reactome_example.RData
38289d8d251766a9cf7d428d67c057d4 *data/macrophage_topGO_example.RData
9b07658749c33b68cd2cab1e1cfdb6a3 *data/macrophage_topGO_example_small.RData
4be2ac7e2389c6db9d01b3b7072a2ea8 *data/ppi_macrophage_topGO_example_small.RData
c22c345e8cbb6c7a3a952fd516cdbc1d *data/sample_geneset.txt
d06203aad0ff5dddc7e917ee6de561bf *data/sample_geneset_broken.txt
7245d3b4e7eade2ab02df45996c304d0 *data/sample_geneset_empty.txt
5b5abeca70546d5d66c74190c637dfed *data/sample_geneset_small.txt
a8c60ba68c46fd9d6ed12dd94f229b82 *data/scores_macrophage_topGO_example_small.RData
eb31a3e18e7567d3d0560e8de4d38f7c *inst/doc/GeDi_manual.R
773ba027f651113f98e7f83853896886 *inst/doc/GeDi_manual.Rmd
273f5fdb4e309f2338c8c3179800ee8e *inst/doc/GeDi_manual.html
06619ccfdb8b2444f7bbe59a55ab87ef *inst/extdata/Figure1.png
1ca840a7d28aed59996f32af6fd8d836 *inst/extdata/GeDi101.md
d999c9d0d0f3f53747c04bf9817eb208 *inst/extdata/about.md
2ee71f84bebfad35d0c9289965f40047 *inst/extdata/intro_bookmarks.txt
adc58f8c3c4c37069277cf493a966f83 *inst/extdata/intro_data_input.txt
b40b7a8c07f92464cd84a9ad37d843cf *inst/extdata/intro_graph.txt
8265b12b9be02c8bbc98cb3b5e812b8d *inst/extdata/intro_scoring.txt
759da08a9003f5874b0495d521a651bb *inst/extdata/intro_welcome.txt
ff279f58ec61f4cf5961a9d101dafbc5 *inst/extdata/report_GeDi.Rmd
77fcf1a32ab7c9a8cc497659e384ce6b *inst/extdata/summary_data_generation.md
794941f387a6d0101f5746de41fb508c *inst/extdata/welcome.md
842e7417e8c735ae3f0f434bb7f03bd9 *inst/extdata/welcome_introduction.md
df4f774ec4554199620a4bea1574797f *inst/www/DataExample.png
08bf4ae30826c92a882a62f6d3604f24 *inst/www/GeDi.png
daaf0ae2bb86108bf34b71c2a97629a6 *man/GeDi.Rd
b07ca9980ebe81f9a48903fdd1686fc9 *man/buildClusterGraph.Rd
5a8021d03cebfe56bfd9920bf72d5e80 *man/buildGraph.Rd
798bc6a94c42954a7b4c12f1ebb29056 *man/buildHistogramData.Rd
b01a939673525289c8174312c374168f *man/checkInclusion.Rd
d0232a1d753c9091d1f192307d3622da *man/clustering.Rd
175d4906424f6173c5b3e8076ba2e1ca *man/deprecated.Rd
8bf1ce64238cf76ae221476abd0a6dce *man/distanceDendro.Rd
1e186630312d2333f5e13f08f9d951b9 *man/distanceHeatmap.Rd
aac4a070e2539e0bfeda408df628eef1 *man/dot-checkGTL.Rd
b3e853685d7a0d15c04135f02bcfc291 *man/dot-checkGenesets.Rd
c45aa27e656c9cc6a985744a186513f3 *man/dot-checkPPI.Rd
fce2bf8103f37d4c09c6eed47ca64d12 *man/dot-checkScores.Rd
f4cfb20f1146de25ed54ef56d993d7f8 *man/dot-cluster_markov.Rd
c9886100ecd407a4c737888325f57314 *man/dot-filterGenesets.Rd
96da6d9c9b29401316f13de6d68952fa *man/dot-findSeparator.Rd
70a5be2085949ebf207df9f331d977e8 *man/dot-getClusterDatatable.Rd
489ba5710980957ae787eac397652794 *man/dot-getGenesetDescriptions.Rd
73f19cacf5105483a59130c2d6c40417 *man/dot-getNumberCores.Rd
ca61f833d0eb5f1c2415981aad377d84 *man/dot-graphMetricsGenesetsDT.Rd
4e3749fdd18552aee9b05daabfff401d *man/dot-map_to_color.Rd
2c34e691d04879f393d09873a5429fae *man/dot-sepguesser.Rd
d8d70d6706433ad7b256c870985e7af4 *man/enrichmentWordcloud.Rd
08bf4ae30826c92a882a62f6d3604f24 *man/figures/GeDi.png
72f6a4be74b2f25b9790fecd766e5edc *man/fuzzyClustering.Rd
bc31d5df589e5054ccf52bd95cabbed7 *man/getAdjacencyMatrix.Rd
638f3000f82662533d732545da6c8bfd *man/getAnnotation.Rd
a3acf698a5d86d9ecfdd18e45bcdec6b *man/getBipartiteGraph.Rd
26318745b6b0baa2915f438dc34b9114 *man/getClusterAdjacencyMatrix.Rd
6128877cc9e5a7850751976e72f04101 *man/getGenes.Rd
b4edd3e23e18b4baa386d339235925af *man/getGraphTitle.Rd
6bb1f36adfc5b2cc3a086fb53d531bb6 *man/getId.Rd
c2d929afe760da7b96c2a563278cd1fb *man/getInteractionScore.Rd
f6ead394806eb38bf70ccc9ea1a3dc27 *man/getJaccardMatrix.Rd
dd0726b30f477359a0ed820e2c4d630f *man/getKappaMatrix.Rd
b3f56527a9ce3949c97a82aa2187a2cd *man/getMeetMinMatrix.Rd
569fdfe4d23b4b36c2224006891d872f *man/getPPI.Rd
6e262980a1322a2e708a95669e935c70 *man/getSorensenDiceMatrix.Rd
95875accd78e76ff23d1cfdfab750dfa *man/getStringDB.Rd
38f27cc11d99cfcd9be781c1d97995e4 *man/getpMMMatrix.Rd
dcf61c1b6e95120f4d1331f8bbc7277d *man/goDistance.Rd
36dae23a38d7a96e00725bedda9e66e9 *man/gsHistogram.Rd
d363342f7fa1715062358abf1c69a9b5 *man/kMeansClustering.Rd
151e9c9a03b66e843bfa4a6ee2f02113 *man/kNN_clustering.Rd
1f1c904a0633d66206b3550a1c570f64 *man/louvainClustering.Rd
4a14f6bc1c32529eb4402a965a735cd7 *man/macrophage_KEGG_example.Rd
afcde4123097d57a5be13e30447b0816 *man/macrophage_Reactome_example.Rd
668a7eef9d889b184c9500f7ef1f8d13 *man/macrophage_topGO_example.Rd
bdd23a09dab7381de4fa518255966c86 *man/macrophage_topGO_example_small.Rd
e934d9bf8d7e52b3fad5e084eb623d83 *man/markovClustering.Rd
19afc48accc86b22239f08a7b372f70a *man/pMMlocal.Rd
709a01bed28f78361af5310244dfb0c4 *man/pamClustering.Rd
c4b30f4de93173c8e28002f305fe5118 *man/path_to_GeDi.Rd
72bebc292067f0397c1969f3a2a3cc97 *man/ppi_macrophage_topGO_example_small.Rd
6a9744d23d19547cb9663ca9fc712962 *man/prepareGenesetData.Rd
46dc511c6429336afe4f8b156007161c *man/sample_geneset.Rd
882ec88d42e242d68bb99211d972fe52 *man/sample_geneset_broken.Rd
14d2f8e17168cda9f271ed3cc3f55370 *man/sample_geneset_empty.Rd
b6cacb27eb2a8ffd916c7cbca1f74d3f *man/sample_geneset_small.Rd
5cc5d49cdedbe29bfac32331203c0012 *man/scores_macrophage_topGO_example_small.Rd
2a76f42ce8dd163c317e76d160652669 *man/seedFinding.Rd
f236d509d59278a4754d6226617599cc *tests/testthat.R
b1568dbe793c0d720b75918fc1df437f *tests/testthat/test-app.R
5bf33d411a39c08253b6a257531e071b *tests/testthat/test-clustering.R
9561c0c8c8576a1d82aa3485f5c9dfac *tests/testthat/test-clustering_wordcloud.R
b1764256da7c9ac88184e680814ae270 *tests/testthat/test-distance_dendro.R
cc74d5d27bf2c0f7f321c7abacdb25da *tests/testthat/test-distance_heatmap.R
36adf9bb77bca30000b1de6f9425a6a9 *tests/testthat/test-downloadPPI.R
67edf796c11a867629894d3cd01ab3df *tests/testthat/test-goSimilarity.R
e5b02f1eec114bea540a13a5c7615d8e *tests/testthat/test-gs_Graph.R
c6c8337c22aace047651e3665ba8b63e *tests/testthat/test-gs_histogram.R
af8db4883a7b72912fe5bcb80d5b7575 *tests/testthat/test-jaccard_Scoring.R
fce9f17b67660baca60e2877357515ab *tests/testthat/test-kappa_scoring.R
b1955b1fcdebec253ed9c4240521ea25 *tests/testthat/test-meetmin_Scoring.R
4b8a649c7b1ed7dbf81ea9bbaed089a8 *tests/testthat/test-pMM_Scoring.R
c8d9418648d79289a305de16204e19bd *tests/testthat/test-sorensen_dice_Scoring.R
94b108364abf320043a2d82268e22399 *tests/testthat/test-utils.R
13e903170d742a6b5cc04be2e2acca45 *vignettes/Clustering_Graph_Panel.png
9ab25b93e90bc425894fec74a7e43ac4 *vignettes/Data_Input_panel_Step1.png
c83a31acbee34d7484e98dcdd5033995 *vignettes/Distance_Score_panel.png
01e67bc3e12fa402c92ba0cb0aaa5412 *vignettes/Downloading_PPI.png
29cbb1fae58eaf7842c51a72f9748335 *vignettes/GeDi.bib
08bf4ae30826c92a882a62f6d3604f24 *vignettes/GeDi.png
773ba027f651113f98e7f83853896886 *vignettes/GeDi_manual.Rmd
978ff2981537fed3fc35fcd71528bcdc *vignettes/Optional_Filtering.png
44a53cf8dd240f95782d13580c8fdd31 *vignettes/Report_panel.png
ec9e418702471a8eff65731d66e2a034 *vignettes/Species_Selection.png
57d90eaabe75ebfd6e16befa73bffe45 *vignettes/Welcome_page.png
