0411679bb6720106c7413a20ca7c8ade *DESCRIPTION
7abc0df1642df2dca348c2775575f372 *NAMESPACE
75eb6fa1772a4bfd54b2103463495e9e *R/data.R
dc0bc7fc9d9007483ab07bffab30bd97 *R/databaseSetUpFunctions.R
1c31d192d426dd911ad4ac2878483223 *R/enrichment_analysis.R
aaf4d4aa7801edbad97940905b652756 *R/meta_analysis_functions.R
099d32a568e3d35182cf6a237e3e157e *R/motif_analysis.R
c8ace9e807cf0f5eec15b28eaa82a411 *R/plotting_functions.R
4beb5a7ab3fa8baf0f8a62bf8d0f44e7 *R/report_functions.R
b6625d3d0018fa0be23bd1ece2d86cd6 *build/vignette.rds
3884df1facce4cd639476cedb59a533e *data/gff.rda
5bcf0b22dbeffe08ded950b052cb4e0a *data/queryRegions.rda
d899626bfdd384dd91c8b8199e8faa4f *inst/CITATION
200b15327638f2e7195e16f75e71a1b8 *inst/NEWS
fea19895e6ed28f8b5eeb7fcc3f33e55 *inst/doc/RCAS.metaAnalysis.vignette.R
7eea0d1460b7f641de600ad5322a8d60 *inst/doc/RCAS.metaAnalysis.vignette.Rmd
1c3bf21d5040406ffb092e3b4997fe9b *inst/doc/RCAS.metaAnalysis.vignette.html
50368f075b0c9cf8aff89eb919a9ff95 *inst/doc/RCAS.vignette.R
4181e178947bc80e6459c4d59ec43100 *inst/doc/RCAS.vignette.Rmd
a4f9b3f87a12124d940f7c409fd28572 *inst/doc/RCAS.vignette.html
4f8573e5f8b697319117c88327a4a236 *inst/extdata/EIF4A3Sauliere20121a.bed
2779ca3ab60fcb8e560e86978c5aa1d2 *inst/extdata/EIF4A3Sauliere20121b.bed
32aa8a32aa4b0b1b69dd340437d6e924 *inst/extdata/FMR1_Ascano2012a_hg19.bed
d4d7442832f9b1d40ed3bb589326839a *inst/extdata/FMR1_Ascano2012b_hg19.bed
5ae985d0d00b8dbc5c4e51481d2799b4 *inst/extdata/FUS_Nakaya2013c_hg19.bed
53ec61cdf36a09a61f64ca31fdf0a0ae *inst/extdata/FUS_Nakaya2013d_hg19.bed
2af4c54bf647b7e46dec40972101443e *inst/extdata/hg19.RCASDB.sqlite
f0de64b19c59a7b202c8faff4d599ace *inst/extdata/hg19.sample.gtf
8802cbda87f908ad610b81f3110bfe10 *inst/extdata/hg19.sample.gtf.granges.rds
aa87ec9a0e15f7849d72747634b911ce *inst/extdata/msigdb_test.gmt
8cea927d9a40a56fbdb778eae43f81e5 *inst/extdata/testfile.bed
8cea927d9a40a56fbdb778eae43f81e5 *inst/extdata/testfile2.bed
053cf68e09070e277a798b0736fb7874 *inst/reporting_scripts/footer.html
b1442cb874099cb5af45301431024ee0 *inst/reporting_scripts/header.html
fdde43c8fba5b0edde0f3fb390f1cdc0 *inst/reporting_scripts/report.Rmd
a09a306dbdd05abf6f6f854d2cb58f14 *inst/reporting_scripts/reportMetaAnalysis.Rmd
3b43391f05eb6052b27471f0ccd15c16 *man/calculateCoverageProfile.Rd
69a3aca00fde7b03b0ee1556ca861f07 *man/calculateCoverageProfileFromTxdb.Rd
b0405e04335a89ca9623ae78b0bf6c2c *man/calculateCoverageProfileList.Rd
817d531fd3d4521753c44db3a734e72d *man/calculateCoverageProfileListFromTxdb.Rd
b0933dafcfba634847b683b9f773019e *man/checkSeqDb.Rd
ff91acf962778228884b5536a852126e *man/createControlRegions.Rd
9f3d49423ae0f467c41d041486c451a5 *man/createDB.Rd
0c3505b970b07f3811af6883feb8c4ce *man/createOrthologousGeneSetList.Rd
4781818d8a806404170f261c6469946c *man/deleteSampleDataFromDB.Rd
91a8f02999e07e04c3317ef3b4062557 *man/discoverFeatureSpecificMotifs.Rd
71d25e94f2217e16cc99a9199d5e37f4 *man/extractSequences.Rd
5f788bfcdce01cfc3e14ed8b69c6b225 *man/findDifferentialMotifs.Rd
fd971df6a21e176997a5c1571aa304a1 *man/findEnrichedFunctions.Rd
9ce6e6c8231ee6f2c5f03ccb09c9fe33 *man/generateKmers.Rd
263dacec6ede394491dae18165a25e72 *man/getFeatureBoundaryCoverage.Rd
2c204ffa81257f00311f85611a05db54 *man/getFeatureBoundaryCoverageBin.Rd
a85642bcb5a5f31cf13b1990a465ed63 *man/getFeatureBoundaryCoverageMulti.Rd
d1275f1a6dea12c235b051289aa8e5b6 *man/getIntervalOverlapMatrix.Rd
806aba475c8fae3de13571172a87d707 *man/getMotifSummaryTable.Rd
71648aaee1868aaaf72f18cee9151dbd *man/getPWM.Rd
1068b15167f163fc748fe0f3453c8ca5 *man/getTargetedGenesTable.Rd
9f69bf528070627711d6bbbc4016c8be *man/getTxdbFeatures.Rd
c39768c355f8d5cc187c0daa28211f3d *man/getTxdbFeaturesFromGRanges.Rd
13db235843ed1e01df4614c29c9fda32 *man/gff.Rd
46769f21107e98ea335487247a714705 *man/importBed.Rd
426e43c0947c026e276ad550a00abb48 *man/importBedFiles.Rd
830c91aa8edc1119f5b663d915f8d551 *man/importGtf.Rd
ce7ecfafdbf49e4e379b3306da93d150 *man/parseMsigdb.Rd
134593f190333db620ea305acad51ece *man/plotFeatureBoundaryCoverage.Rd
2e103012b852164f39297a842ef77693 *man/printMsigdbDataset.Rd
31389fe1fff3caa8177c5c0288c79e9e *man/queryGff.Rd
db436ad559f21f888b95425733d884d7 *man/queryRegions.Rd
2cf86b3a776474eb6f709aab021e2cd2 *man/retrieveOrthologs.Rd
b82f923eb3e24877f233ad40514a184c *man/runGSEA.Rd
dd01eb8a201ba1703c95ffefdb0d7732 *man/runMotifDiscovery.Rd
3d9042374e24ad5e78e8ebffe9f2b126 *man/runMotifRG.Rd
6cccdd3db6c57910af3f56f407462af8 *man/runReport.Rd
57c96aa4754e6bc8c8ae8c84f81c6fb8 *man/runReportMetaAnalysis.Rd
ce7819b5ab44b44d5a66956b15901335 *man/runTopGO.Rd
af937affa3ebcbbe45b1adcf2583b564 *man/summarizeDatabaseContent.Rd
292feacdad1a207313135d8918240e9b *man/summarizeQueryRegions.Rd
7a7fc163132de39ed657c94b7fb1e7db *man/summarizeQueryRegionsMulti.Rd
61f595caa9d5634a0f92678c9b97076b *tests/testthat.R
2a7154f73cd7ccf6083c617ef0279662 *tests/testthat/test_data.R
2755bbfa44c13f5b8bc71d79c7a70f2f *tests/testthat/test_database_functions.R
f0eb9a471d69322a4fd16411bc69f456 *tests/testthat/test_motif.R
53d81a9402b9b461a00b726ba0786839 *tests/testthat/test_report.R
af013ae86a002b87e54f33354fcf616f *tests/testthat/test_txdbfeatures.R
7eea0d1460b7f641de600ad5322a8d60 *vignettes/RCAS.metaAnalysis.vignette.Rmd
4181e178947bc80e6459c4d59ec43100 *vignettes/RCAS.vignette.Rmd
