Files in vd4mmind/methylkit
DNA methylation analysis from high-throughput bisulfite sequencing results
.Rbuildignore
.Rinstignore
.gitignore
DESCRIPTION
NAMESPACE
NEWS
R/adjust.methylC.R
R/annotate.R
R/backbone.R
R/batchControl.R
R/bedgraph.R
R/clusterSamples.R
R/diffMeth.R
R/document_data.R
R/merge2.R
R/normalizeCoverage.R
R/percMethylation.R
R/pool.R
R/read.bismark.R
R/regionalize.R
R/reorganize.R
R/updateMethObject.R
data/methylKit.RData
examples/example.R
exec/methCall.pl
inst/CITATION
inst/doc/Sweavel.sty
inst/doc/Vignette_methylKit.bib
inst/doc/methylKit.Rnw
inst/doc/methylKit.pdf
inst/extdata/control1.myCpG.txt
inst/extdata/control2.myCpG.txt
inst/extdata/cpgi.hg18.bed.txt
inst/extdata/generic1.CpG.txt
inst/extdata/refseq.hg18.bed.txt
inst/extdata/test.fastq_bismark.sorted.min.sam
inst/extdata/test.fastq_bismark.unsorted.min.sam
inst/extdata/test1.myCpG.txt
inst/extdata/test2.myCpG.txt
inst/scripts/create.data.R
inst/tests/test-1-read.r
inst/tests/test-2-unite.r
inst/tests/test-3-clusterSamples.r
inst/tests/test-4-calculateDiffMeth.r
inst/tests/test-5-read.bismark.r
inst/tests/test-6-regionCounts.r
man/.Rapp.history
man/PCASamples-methods.Rd
man/adjust.methylC.Rd
man/annotate.WithFeature-methods.Rd
man/annotate.WithFeature.Flank-methods.Rd
man/annotate.WithGenicParts-methods.Rd
man/annotationByFeature-class.Rd
man/annotationByGenicParts-class.Rd
man/annotationByGenicParts-methods.Rd
man/assocComp-methods.Rd
man/bedgraph-methods.Rd
man/calculateDiffMeth-methods.Rd
man/clusterSamples-methods.Rd
man/diffMethPerChr-methods.Rd
man/extract-methods.Rd
man/filterByCoverage-methods.Rd
man/get.methylDiff-methods.Rd
man/getAssembly-methods.Rd
man/getContext-methods.Rd
man/getCorrelation-methods.Rd
man/getCoverageStats-methods.Rd
man/getData-methods.Rd
man/getFeatsWithTargetsStats-methods.Rd
man/getFlanks-methods.Rd
man/getMembers-methods.Rd
man/getMethylationStats-methods.Rd
man/getTargetAnnotationStats-methods.Rd
man/methylBase-class.Rd
man/methylBase.obj.Rd
man/methylDiff-class.Rd
man/methylDiff.obj.Rd
man/methylRaw-class.Rd
man/methylRawList-class.Rd
man/methylRawList.obj.Rd
man/normalizeCoverage-methods.Rd
man/percMethylation-methods.Rd
man/plotTargetAnnotation-methods.Rd
man/pool-methods.Rd
man/read-methods.Rd
man/read.bed-methods.Rd
man/read.bismark-methods.Rd
man/read.feature.flank-methods.Rd
man/read.transcript.features-methods.Rd
man/reconstruct-methods.Rd
man/regionCounts.Rd
man/removeComp-methods.Rd
man/reorganize-methods.Rd
man/select-methods.Rd
man/show-methods.Rd
man/tileMethylCounts-methods.Rd
man/unite-methods.Rd
man/updateMethObject.Rd
tests/test-all.R
