chipseq: chipseq: A package for analyzing chipseq data

Tools for helping process short read data for chipseq experiments

AuthorDeepayan Sarkar, Robert Gentleman, Michael Lawrence, Zizhen Yao
Date of publicationNone
MaintainerBioconductor Package Maintainer <maintainer@bioconductor.org>
LicenseArtistic-2.0
Version1.24.0

View on Bioconductor

Files

chipseq/DESCRIPTION
chipseq/NAMESPACE
chipseq/R
chipseq/R/context.R chipseq/R/diffPeaks.R chipseq/R/filter.R chipseq/R/fraglen.R chipseq/R/intersect.R chipseq/R/islands.R chipseq/R/peaks.R chipseq/R/plots.R chipseq/R/subsets.R
chipseq/TODO
chipseq/build
chipseq/build/vignette.rds
chipseq/data
chipseq/data/cstest.rda
chipseq/data/datalist
chipseq/inst
chipseq/inst/Scripts
chipseq/inst/Scripts/AntibodyComparison.Rnw
chipseq/inst/Scripts/CTCFBindingSites.R
chipseq/inst/Scripts/CTCF_ERV.R
chipseq/inst/Scripts/CopyNumber.Rnw
chipseq/inst/Scripts/Islands.Rnw
chipseq/inst/Scripts/MyoD.R
chipseq/inst/Scripts/PairedEndComparison.Rnw
chipseq/inst/Scripts/PeakContextHuman.Rnw
chipseq/inst/Scripts/PeakContextMouse.Rnw
chipseq/inst/Scripts/PeakCutoff.Rnw
chipseq/inst/Scripts/PeakModel.Rnw
chipseq/inst/Scripts/PeakReproducibility.Rnw
chipseq/inst/Scripts/PeaksByCopyNumber.Rnw
chipseq/inst/Scripts/RateComparison.Rnw
chipseq/inst/Scripts/ReadAndSave54.R
chipseq/inst/Scripts/ReadAndSaveCTCF.R
chipseq/inst/Scripts/ReadAndSaveData.R
chipseq/inst/Scripts/ReadAndSaveSimulation.R
chipseq/inst/Scripts/SolexaSim.R
chipseq/inst/Scripts/abc.rda
chipseq/inst/Scripts/antibody_comparison.R
chipseq/inst/Scripts/dePeaks.R
chipseq/inst/Scripts/diffpeak.R
chipseq/inst/Scripts/diffpeaks.R
chipseq/inst/Scripts/estimate_fragment_size.R
chipseq/inst/Scripts/fibroblasts.R
chipseq/inst/Scripts/figs
chipseq/inst/Scripts/getIsochores.R
chipseq/inst/Scripts/hmm.R
chipseq/inst/Scripts/human-islands.R
chipseq/inst/Scripts/isochore_comparison.R
chipseq/inst/Scripts/isochores.mm9.rda
chipseq/inst/Scripts/negbinomial.R
chipseq/inst/Scripts/peakContext.R
chipseq/inst/Scripts/peak_mle.R
chipseq/inst/Scripts/poisson.R
chipseq/inst/Scripts/simulate.R
chipseq/inst/Scripts/singletons.Rnw
chipseq/inst/Scripts/solexa54.R
chipseq/inst/doc
chipseq/inst/doc/Workflow.R
chipseq/inst/doc/Workflow.Rnw
chipseq/inst/doc/Workflow.pdf
chipseq/man
chipseq/man/chipseqFilter.Rd chipseq/man/coverageplot.Rd chipseq/man/cstest.Rd chipseq/man/diffPeakSummary.Rd chipseq/man/estimate.mean.fraglen.Rd chipseq/man/islandDepthPlot.Rd chipseq/man/laneSubsample.Rd chipseq/man/peakCutoff.Rd chipseq/man/peakSummary-methods.Rd chipseq/man/subsetSummary.Rd
chipseq/src
chipseq/src/rlesumprod.c
chipseq/vignettes
chipseq/vignettes/Workflow.Rnw

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