Files in Bioconductor-mirror/methylKit
DNA methylation analysis from high-throughput bisulfite sequencing results

.Rbuildignore
.Rinstignore
.gitignore
.travis.yml
DESCRIPTION
NAMESPACE
NEWS
R/RcppExports.R R/adjust.methylC.R R/backbone.R R/batchControl.R R/bedgraph.R R/clusterSamples.R R/dataSim.R R/deprecated_defunct.R R/diffMeth.R R/diffMethDSS.R R/document_data.R R/methSeg.R R/methylDBClasses.R R/methylDBFunctions.R R/methylKit.R R/normalizeCoverage.R R/onUnload.R R/percMethylation.R R/pool.R R/processBismarkAln.R R/regionalize.R R/reorganize.R R/tabix.functions.R R/updateMethObject.R README.md
data/methylKit.RData
inst/CITATION
inst/extdata/control1.myCpG.txt
inst/extdata/control2.myCpG.txt
inst/extdata/cpgi.hg18.bed.txt
inst/extdata/ctrl.bismark_paired_end.sorted.bam
inst/extdata/ctrl.bismark_paired_end.sorted.wh.sam
inst/extdata/ctrl1.txt.bgz
inst/extdata/ctrl2.txt.bgz
inst/extdata/generic1.CpG.txt
inst/extdata/refseq.hg18.bed.txt
inst/extdata/test.bismark_single_end.sorted.bam
inst/extdata/test.bismark_single_end.sorted.wh.sam
inst/extdata/test.fastq_bismark.sorted.min.sam
inst/extdata/test.fastq_bismark.unsorted.min.sam
inst/extdata/test1.myCpG.txt
inst/extdata/test1.txt.bgz
inst/extdata/test1_test2_ctrl1_ctrl2.txt.bgz
inst/extdata/test1_test2_ctrl1_ctrl2_diffMeth.txt.bgz
inst/extdata/test2.myCpG.txt
inst/extdata/test2.txt.bgz
inst/scripts/create.data.R
man/.Rapp.history
man/PCASamples-methods.Rd man/adjustMethylC.Rd man/assocComp-methods.Rd man/bedgraph-methods.Rd man/calculateDiffMeth-methods.Rd man/calculateDiffMethDSS-methods.Rd man/clusterSamples-methods.Rd man/dataSim-methods.Rd man/diffMethPerChr-methods.Rd man/extract-methods.Rd man/filterByCoverage-methods.Rd man/genomation-deprecated.Rd man/getAssembly-methods.Rd man/getContext-methods.Rd man/getCorrelation-methods.Rd man/getCoverageStats-methods.Rd man/getDBPath-methods.Rd man/getData-methods.Rd man/getMethylDiff-methods.Rd man/getMethylationStats-methods.Rd man/getSampleID-methods.Rd man/getTreatment-methods.Rd man/makeMethylDB-methods.Rd man/methRead-methods.Rd man/methSeg.Rd man/methSeg2bed.Rd man/methylBase-class.Rd man/methylBase.obj.Rd man/methylBaseDB-class.Rd man/methylDiff-class.Rd man/methylDiff.obj.Rd man/methylDiffDB-class.Rd man/methylRaw-class.Rd man/methylRawDB-class.Rd man/methylRawList-class.Rd man/methylRawList.obj.Rd man/methylRawListDB-class.Rd man/normalizeCoverage-methods.Rd man/percMethylation-methods.Rd man/pool-methods.Rd man/processBismarkAln-methods.Rd man/reconstruct-methods.Rd man/regionCounts.Rd man/removeComp-methods.Rd man/reorganize-methods.Rd man/select-methods.Rd man/selectByOverlap-methods.Rd man/show-methods.Rd man/tileMethylCounts-methods.Rd man/unite-methods.Rd man/updateMethObject.Rd
src/Makevars
src/Makevars.win
src/RcppExports.cpp
src/methCall.cpp
tests/testthat.R tests/testthat/test-1-read.r tests/testthat/test-10-readTabix.r tests/testthat/test-11-pool.r tests/testthat/test-2-unite.r tests/testthat/test-3-clusterSamples.r tests/testthat/test-4-calculateDiffMeth.r tests/testthat/test-5-processBismarkAln.r tests/testthat/test-6-regionCounts.r tests/testthat/test-7-dataSim.r tests/testthat/test-8-calculateDiffMethDSS.r tests/testthat/test-8-methSeg.r tests/testthat/test-999-tidyUp.r
vignettes/Sweavel.sty
vignettes/Vignette_methylKit.bib
vignettes/methylKit.Rmd
Bioconductor-mirror/methylKit documentation built on June 1, 2017, 12:41 p.m.