Files in ttriche/biscuitEater
a bunch of convenience functions for Biscuit
.gitignore
DESCRIPTION
LICENSE
Makefile
NAMESPACE
NEWS.md
R/CpGindex.R
R/RRBSeq.R
R/TN_WGBS_CNA.R
R/WGBSage.R
R/WGBSeq.R
R/WGBSseg.R
R/atRegions.R
R/bigWigsToSegs.R
R/binCoverage.R
R/biscuitMetadata.R
R/biscuiteer.R
R/byChromArm.R
R/byExtremality.R
R/checkBiscuitBED.R
R/condenseSampleNames.R
R/correctBsSeqCoverage.R
R/correctCoverage.R
R/correctDepth.R
R/extremality.R
R/fexpit.R
R/filterLoci.R
R/fixAge.R
R/fixNAs.R
R/flogit.R
R/generics.R
R/getClock.R
R/getLogitFracMeth.R
R/grToSeg.R
R/loadHDF5.R
R/makeBSseq.R
R/plotSegs.R
R/read.biscuit.R
R/saveHDF5.R
R/segToGr.R
R/simplifySampleNames.R
R/summarizeBsSeqOver.R
R/unionize.R
R/unionizeBSseq.R
README.md
appveyor.yml
data/ENSR_subset.hg19.rda
data/ENSR_subset.hg38.rda
data/GRCh37.chromArm.rda
data/GRCh38.chromArm.rda
data/H9state23unmeth.hg19.rda
data/H9state23unmeth.hg38.rda
data/HMM_CpG_islands.hg19.rda
data/HMM_CpG_islands.hg38.rda
data/PMDs.hg19.rda
data/PMDs.hg38.rda
data/Zhou_solo_WCGW_inCommonPMDs.hg19.rda
data/Zhou_solo_WCGW_inCommonPMDs.hg38.rda
data/bsgc.hg19.rda
data/clocks.rda
data/hg19.chromArm.rda
data/hg38.chromArm.rda
data/maps.hg19.rda
data/openSeas.hg19.rda
data/openSeas.hg38.rda
data/seqinfo.hg19.rda
data/seqinfo.hg38.rda
data/seqinfo.mm10.rda
inst/extdata/HMM_CpG_islands.hg19.bed.gz
inst/extdata/HMM_CpG_islands.hg19.bed.gz.tbi
inst/extdata/HMM_CpG_islands.hg38.bed.gz
inst/extdata/HMM_CpG_islands.hg38.bed.gz.tbi
inst/extdata/HannumClock.csv
inst/extdata/HorvathClock.csv
inst/extdata/SkinAndBloodClock.csv
inst/extdata/Zhou_common_PMDs.hg19.bed.gz
inst/extdata/Zhou_common_PMDs.hg19.bed.gz.tbi
inst/extdata/Zhou_solo_WCGW_inCommonPMDs.hg19.bed.gz
inst/extdata/Zhou_solo_WCGW_inCommonPMDs.hg19.bed.gz.tbi
inst/extdata/clocks.R
inst/extdata/getOpenSeas.R
inst/extdata/mfests.rds
inst/extdata/regBuilds.rds
man/CpGindex.Rd
man/RRBSeq.Rd
man/TN_WGBS_CNA.Rd
man/WGBSage.Rd
man/WGBSeq.Rd
man/WGBSseg.Rd
man/atRegions.Rd
man/bigWigsToSegs.Rd
man/binCoverage.Rd
man/biscuitMetadata.Rd
man/biscuiteer-methods.Rd
man/byChromArm.Rd
man/byExtremality.Rd
man/checkBiscuitBED.Rd
man/condenseSampleNames.Rd
man/correctBsSeqCoverage.Rd
man/correctDepth.Rd
man/extremality.Rd
man/fexpit.Rd
man/filterLoci.Rd
man/fixAge.Rd
man/fixNAs.Rd
man/flogit.Rd
man/getClock.Rd
man/getLogitFracMeth.Rd
man/grToSeg.Rd
man/loadHDF5.Rd
man/makeBSseq.Rd
man/plotSegs.Rd
man/read.biscuit.Rd
man/saveHDF5.Rd
man/segToGr.Rd
man/simplifySampleNames.Rd
man/summarizeBsSeqOver.Rd
man/unionize.Rd
man/unionizeBSseq.Rd
tests/testthat.R
tests/testthat/helper.R
tests/testthat/test-something.R
