Files in yueli-compbio/RIPSeeker
RIPSeeker: a statistical package for identifying protein-associated transcripts from RIP-seq experiments
.Rbuildignore
.gitignore
DESCRIPTION
NAMESPACE
R/.Rhistory
R/.Rproj.user/41F15E9D/pcs/files-pane.pper
R/.Rproj.user/41F15E9D/pcs/source-pane.pper
R/.Rproj.user/41F15E9D/pcs/windowlayoutstate.pper
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R/.Rproj.user/41F15E9D/saved_source_markers
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R/.Rproj.user/41F15E9D/sdb/per/t/464E8BE1
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R/.Rproj.user/41F15E9D/sdb/prop/CD293E57
R/.Rproj.user/41F15E9D/sdb/prop/INDEX
R/R.Rproj
R/addDummyProb.R
R/addPseudoAlignment.R
R/annotateRIP.R
R/annotateRIP.R~
R/binCount.R
R/combineAlignGals.R
R/combineRIP.R
R/computeLogOdd.R
R/computeRPKM.R
R/disambiguateMultihits.R
R/empiricalFDR.R
R/evalBinSize.R
R/exportGRanges.R
R/galp2gal.R
R/galp2gal.R~
R/getAlignGal.R
R/logScoreWithControl.R
R/logScoreWithoutControl.R
R/mainSeek.R
R/mainSeekSingleChrom.R
R/nbh.GRanges.R
R/nbh.R
R/nbh.integer.R
R/nbh_chk.R
R/nbh_em.R
R/nbh_gen.R
R/nbh_init.R
R/nbh_vit.R
R/nbm_chk.R
R/nbm_em.R
R/plotCoverage.R
R/randindx.R
R/ripSeek.R
R/rulebaseRIPSeek.R
R/scoreMergedBins.R
R/seekRIP.R
R/selectBinSize.R
R/statdis.R
R/viewRIP.R
README.md
RIPSeeker.Rproj
inst/CITATION
inst/NEWS
inst/extdata/PRC2/SRR039210_processed_tophat/accepted_hits_noDup_sel_chrX.bam
inst/extdata/PRC2/SRR039211_processed_tophat/accepted_hits_noDup_sel_chrX.bam
inst/extdata/PRC2/SRR039214_processed_tophat/accepted_hits_noDup_sel_chrX.bam
inst/extdata/RIPregions/RIPregion_biorep1.gff3
inst/extdata/RIPregions/RIPregion_biorep2.gff3
inst/extdata/pairedend/ex1.bam
man/RIPSeeker-package.Rd
man/addDummyProb.Rd
man/addPseudoAlignment.Rd
man/annotateRIP.Rd
man/binCount.Rd
man/combineAlignGals.Rd
man/combineRIP.Rd
man/computeLogOdd.Rd
man/computeRPKM.Rd
man/disambiguateMultihits.Rd
man/empiricalFDR.Rd
man/evalBinSize.Rd
man/exportGRanges.Rd
man/galp2gal.Rd
man/getAlignGal.Rd
man/logScoreWithControl.Rd
man/logScoreWithoutControl.Rd
man/mainSeek.Rd
man/mainSeekSingleChrom.Rd
man/nbh.GRanges.Rd
man/nbh.Rd
man/nbh.integer.Rd
man/nbh_chk.Rd
man/nbh_em.Rd
man/nbh_gen.Rd
man/nbh_init.Rd
man/nbh_vit.Rd
man/nbm_chk.Rd
man/nbm_em.Rd
man/plotCoverage.Rd
man/plotStrandedCoverage.Rd
man/randindx.Rd
man/ripSeek.Rd
man/rulebaseRIPSeek.Rd
man/scoreMergedBins.Rd
man/seekRIP.Rd
man/selectBinSize.Rd
man/statdis.Rd
man/viewRIP.Rd
vignettes/RIPSeeker.Rnw
vignettes/RIPSeeker.bib
vignettes/SD.aux
vignettes/nar.aux
