Files in trichelab/biscuiteer
Convenience Functions for Biscuit
.gitignore
DESCRIPTION
NAMESPACE
NEWS.md
R/CpGindex.R
R/RRBSeq.R
R/WGBSage.R
R/WGBSeq.R
R/atRegions.R
R/binCoverage.R
R/biscuitMetadata.R
R/biscuiteer.R
R/byChromArm.R
R/byExtremality.R
R/checkBiscuitBED.R
R/condenseSampleNames.R
R/data.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/makeBSseq.R
R/readBiscuit.R
R/readEpibed.R
R/segToGr.R
R/simplifySampleNames.R
R/summarizeBsSeqOver.R
R/tabixToGr.R
R/unionize.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/clocks.rda
data/hg19.chromArm.rda
data/hg38.chromArm.rda
data/seqinfo.hg19.rda
data/seqinfo.hg38.rda
data/seqinfo.mm10.rda
inst/doc/biscuiteer.md
inst/extdata/MCF7_Cunha_chr11p15.bed.gz
inst/extdata/MCF7_Cunha_chr11p15.bed.gz.tbi
inst/extdata/MCF7_Cunha_chr11p15_shuffled.bed.gz
inst/extdata/MCF7_Cunha_chr11p15_shuffled.bed.gz.tbi
inst/extdata/MCF7_Cunha_header_only.vcf.gz
inst/extdata/MCF7_Cunha_header_only.vcf.gz.tbi
inst/extdata/MCF7_Cunha_shuffled_header_only.vcf.gz
inst/extdata/MCF7_Cunha_shuffled_header_only.vcf.gz.tbi
inst/extdata/hct116.bsseq.epibed.gz
inst/extdata/hct116.bsseq.epibed.gz.tbi
inst/extdata/hct116.nome.epibed.gz
inst/extdata/hct116.nome.epibed.gz.tbi
inst/scripts/clocks.R
inst/scripts/extdataDescription.md
inst/scripts/genShuffledMCF7CunhaBed.py
man/CpGindex.Rd
man/ENSR_subset.hg19.Rd
man/ENSR_subset.hg38.Rd
man/GRCh37.chromArm.Rd
man/GRCh38.chromArm.Rd
man/H9state23unmeth.hg19.Rd
man/H9state23unmeth.hg38.Rd
man/HMM_CpG_islands.hg19.Rd
man/HMM_CpG_islands.hg38.Rd
man/RRBSeq.Rd
man/WGBSage.Rd
man/WGBSeq.Rd
man/atRegions.Rd
man/binCoverage.Rd
man/biscuitMetadata.Rd
man/biscuiteer-methods.Rd
man/biscuiteer-package.Rd
man/byChromArm.Rd
man/byExtremality.Rd
man/checkBiscuitBED.Rd
man/clocks.Rd
man/condenseSampleNames.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/hg19.chromArm.Rd
man/hg38.chromArm.Rd
man/makeBSseq.Rd
man/readBiscuit.Rd
man/readEpibed.Rd
man/segToGr.Rd
man/seqinfo.hg19.Rd
man/seqinfo.hg38.Rd
man/seqinfo.mm10.Rd
man/simplifySampleNames.Rd
man/summarizeBsSeqOver.Rd
man/tabixRetrieve.Rd
man/unionize.Rd
tests/testthat.R
tests/testthat/helper.R
tests/testthat/test_byExtremality.R
vignettes/biscuiteer.Rmd
