Files in csaw
ChIP-Seq Analysis with Windows

DESCRIPTION
NAMESPACE
R/clusterFDR.R R/upweightSummit.R R/scaledAverage.R R/checkBimodality.R R/clusterWindows.R R/windowCounts.R R/basefun.R R/mergeWindows.R R/combineTests.R R/overlapStats.R R/asDGEList.R R/profileSites.R R/detailRanges.R R/csawUsersGuide.R R/findMaxima.R R/getBestTest.R R/consolidateSizes.R R/extractReads.R R/readParam.R R/filterWindows.R R/empiricalFDR.R R/regionCounts.R R/normOffsets.R R/maximizeCcf.R R/strandedCounts.R R/mixedClusters.R R/getPESizes.R R/correlateReads.R
inst/CITATION
inst/NEWS.Rd
inst/tests/test-combine.R
inst/tests/test-cons.Rout.save
inst/tests/run_all_tests.sh
inst/tests/test-overlap.R
inst/tests/test-bimodal.Rout.save
inst/tests/test-ccf.Rout.save
inst/tests/test-overlap.Rout.save
inst/tests/test-detail.Rout.save
inst/tests/test-norm.R inst/tests/test-cluster.R
inst/tests/test-combine.Rout.save
inst/tests/test-empty.Rout.save
inst/tests/test-region.Rout.save
inst/tests/test-bimodal.R inst/tests/test-profile.R inst/tests/test-filter.R inst/tests/simsam.R
inst/tests/test-norm.Rout.save
inst/tests/test-pet3.R inst/tests/test-best.R inst/tests/test-cons.R
inst/tests/test-best.Rout.save
inst/tests/test-cluster.Rout.save
inst/tests/test-detail.R inst/tests/test-chip.R inst/tests/test-empirical.R
inst/tests/test-chip.Rout.save
inst/tests/test-pet3.Rout.save
inst/tests/test-ccf.R
inst/tests/test-empirical.Rout.save
inst/tests/test-merge.R inst/tests/test-region.R
inst/tests/test-profile.Rout.save
inst/tests/test-empty.R
inst/tests/test-filter.Rout.save
inst/tests/test-maxima.R
inst/tests/test-merge.Rout.save
inst/tests/test-maxima.Rout.save
inst/exdata/pet.bam
inst/exdata/rep1.bam
inst/exdata/rep1.bam.bai
inst/exdata/autogen.R
inst/exdata/rep2.bam.bai
inst/exdata/exrange.rds
inst/exdata/pet.bam.bai
inst/exdata/pet.sam
inst/exdata/rep2.bam
inst/doc/csawUserGuide.pdf
inst/doc/csaw.Rnw
inst/doc/csaw.pdf man/overlapStats.Rd man/mergeWindows.Rd man/csawUsersGuide.Rd man/clusterFDR.Rd man/detailRanges.Rd man/regionCounts.Rd man/SEmethods.Rd man/extractReads.Rd man/consolidateClusters.Rd man/upweightSummit.Rd man/getBestTest.Rd man/clusterWindows.Rd man/strandedCounts.Rd man/windowCounts.Rd man/wwhm.Rd man/combineTests.Rd man/findMaxima.Rd man/consolidateSizes.Rd man/readParam.Rd man/getPESizes.Rd man/checkBimodality.Rd man/normOffsets.Rd man/filterWindows.Rd man/profileSites.Rd man/maximizeCcf.Rd man/mixedClusters.Rd man/empiricalFDR.Rd man/scaledAverage.Rd man/getWidths.Rd man/correlateReads.Rd
vignettes/csaw.Rnw
tests/test-basic.Rout.save
tests/test-basic.R
build/vignette.rds
src/utils.cpp
src/find_maxima.cpp
src/bam_utils.h
src/check_bimodality.cpp
src/merge_windows.cpp
src/get_rle_counts.cpp
src/init.cpp
src/annotator.cpp
src/get_cluster_stats.cpp
src/csaw.h
src/single_reads.cpp
src/Makevars
src/pair_reads.cpp
src/Makevars.win
src/correlate_reads.cpp
src/get_profile.cpp
src/bam_utils.cpp
src/utils.h
src/best_in_cluster.cpp
csaw documentation built on Nov. 17, 2017, 9:21 a.m.