8302ba66769bebe6647a094663de129f *DESCRIPTION
89fba0ba5fd4fcb03178351fef062233 *NAMESPACE
38f589144178624e633876803aa21e50 *NEWS.md
060622f06d8c5609553788c19f038ffd *R/TCGADownloader.R
a19240182b0b05d0d567a61a857caea7 *R/TENET-package.R
ae477c13ca0455789e5dfd91e7ccff37 *R/TENETCacheAllData.R
0de0568e1e1eb1e3022c44d8bf0d5d29 *R/TENETSavedSizePlot-class.R
5a6a9b8fd0e1c7fe391c429b4703a3a1 *R/data.R
86b461556443eb995372e8557c26953b *R/easyTENET.R
56f185ad4c425de75c834243acc03be5 *R/heatmap3.R
ff86d052c1c6dbc1ccf42765fa010594 *R/step1MakeExternalDatasets.R
23b558bf5f674b7f1d2115c853123969 *R/step2GetDifferentiallyMethylatedSites.R
1295745be8aad49319b553b145ef38a9 *R/step3GetAnalysisZScores.R
03af5df71b29a60cc3636d02ce0cac52 *R/step4SelectMostSignificantLinksPerDNAMethylationSite.R
a8285c45adc5513f118f33ed97212a6b *R/step5OptimizeLinks.R
1bb6e6dfe377ae73a78a51908991f062 *R/step6DNAMethylationSitesPerGeneTabulation.R
1badf22a4513544c08c05bf495481150 *R/step7BoxplotsSharedCode.R
3687e84886d2688bbd180d4c0573a063 *R/step7ExpressionVsDNAMethylationScatterplots.R
af1caa8fe62fe81f448d33e6412f1551 *R/step7LinkedDNAMethylationSiteCountHistograms.R
4f6596b77ab25e582f8164209075c368 *R/step7LinkedDNAMethylationSitesMotifSearching.R
4f4289fc342a79966e4c624b9c0c4263 *R/step7SelectedDNAMethylationSitesCaseVsControlBoxplots.R
378d6137687ee47e54334a87aad70b2a *R/step7StatesForLinks.R
3c336dd5d533be9e59e67a1b46b7f511 *R/step7TopGenesCaseVsControlExpressionBoxplots.R
b53d610df11fb27f5687ba5caaed50ae *R/step7TopGenesCircosPlots.R
4973634cb45f9747148c9c3c1b974f78 *R/step7TopGenesDNAMethylationHeatmaps.R
474ae2f82814a2c4562eee95e52ff220 *R/step7TopGenesExpressionCorrelationHeatmaps.R
545a7246149b84ad5bc6309d817c9a68 *R/step7TopGenesOverlappingLinkedDNAMethylationSitesHeatmaps.R
ae3182cdc07a6ade5dca87aa1f188848 *R/step7TopGenesSurvival.R
ffb9ff98c8a34c822d2b0ad5b0061b60 *R/step7TopGenesTADTables.R
ede2cf26500c1463278b6120e2bdb517 *R/step7TopGenesUCSCBedFiles.R
56d3623d7f802f0b0adc237b5b5b1fa9 *R/step7TopGenesUserPeakOverlap.R
eda2431cc318322f5aa2d667e8f4683b *R/utils.R
c4730ada3e6285094be8111e17a43c15 *README.md
601f5e6ac43b11390a6c0e209071fc49 *build/vignette.rds
8ec6db31e251e3a61e8d10c747108026 *data/humanTranscriptionFactorDb.rda
a4ee3acccf9058f49e955fba748701fe *data/humanTranscriptionFactorList.rda
9abfad7900e54c7ef9fffc0dbf9b2a6f *inst/CITATION
1b8666caa4f9a69a7ceb70fbe0717e9a *inst/doc/TENET_vignette.R
848a5130a7c2913eba6cab4fb56fa226 *inst/doc/TENET_vignette.Rmd
98b373c7ec0140deb6e68519aa6fbab9 *inst/doc/TENET_vignette.html
f81be3673c583e8d118db602468d75b7 *inst/scripts/make-data.R
06153ca0fd9a436c0ec36b50996d5ba6 *man/TCGADownloader.Rd
d8a11f26e0f14442d6ed23ec7ea83042 *man/TENET.Rd
37234ff4fa6dd10906a4304ba8dd2d6e *man/TENETCacheAllData.Rd
45b7d5e0ffb2f60ec8e9270a53b683de *man/easyTENET.Rd
1fd0ac1293e617aad11a8c5bdd666f6b *man/humanTranscriptionFactorDb.Rd
23ae9d0cb8bb6ecdb989f5c424e05c14 *man/humanTranscriptionFactorList.Rd
8ce42bb76f953cb753bc768b5bcbad66 *man/step1MakeExternalDatasets.Rd
ced05701ac11b61f5cce4c442d9f8752 *man/step2GetDifferentiallyMethylatedSites.Rd
1dd358d722c309aad9f8474845e16cc9 *man/step3GetAnalysisZScores.Rd
b694b05b7174fb2794cb16b744ac70de *man/step4SelectMostSignificantLinksPerDNAMethylationSite.Rd
03cba5785788c30c05d98d4df262b5fd *man/step5OptimizeLinks.Rd
37d1018a308491654f9a9401de311167 *man/step6DNAMethylationSitesPerGeneTabulation.Rd
0c6aa7f36df973a12407026269b92cef *man/step7ExpressionVsDNAMethylationScatterplots.Rd
3468661aba11c9ec121aefa5f45aeb67 *man/step7LinkedDNAMethylationSiteCountHistograms.Rd
1a043b92249f57191fea917b9f4a819f *man/step7LinkedDNAMethylationSitesMotifSearching.Rd
48997d671cefc63727aee1a88dd5977c *man/step7SelectedDNAMethylationSitesCaseVsControlBoxplots.Rd
16d2835e6712d63bec22853b5405e372 *man/step7StatesForLinks.Rd
ed0330752efac83fc19212d40622423d *man/step7TopGenesCaseVsControlExpressionBoxplots.Rd
4bed864f0082cf5c4146277498696479 *man/step7TopGenesCircosPlots.Rd
91660f98881a90c041dbe92f499107d9 *man/step7TopGenesDNAMethylationHeatmaps.Rd
aa71e86812ec6bbbfa9957014dfd36d0 *man/step7TopGenesExpressionCorrelationHeatmaps.Rd
81fd3eba4d92035a487c4dd619adc481 *man/step7TopGenesOverlappingLinkedDNAMethylationSitesHeatmaps.Rd
daabaa90b58187165cabc249fade31e3 *man/step7TopGenesSurvival.Rd
90015eacb230927253e37401a324bb3c *man/step7TopGenesTADTables.Rd
29866128763c55d9fa319a54c3dce155 *man/step7TopGenesUCSCBedFiles.Rd
144e91256792d84526649a4c8c966e5e *man/step7TopGenesUserPeakOverlap.Rd
848a5130a7c2913eba6cab4fb56fa226 *vignettes/TENET_vignette.Rmd
