Files in DiffBind
Differential Binding Analysis of ChIP-Seq Peak Data
NAMESPACE
DESCRIPTION
R/RcppExports.R
R/blacklist.R
R/normalize.R
R/core.R
R/counts.R
R/parallel.R
R/analyze.R
R/model.R
R/report.R
R/cpp_wrapper.R
R/helper.R
R/contrast.R
R/plots.R
R/DBA.R
R/analyze_deseq2.R
R/io.R
R/analyze_edgeR.R
R/utils.R
src/densitySet.h
src/sequence.cpp
src/Makevars
src/peakOrder.cpp
src/croi_func.h
src/densitySet.cpp
src/interval.cpp
src/intervalTree.h
src/intervalSet.cpp
src/intervalDensity.cpp
src/sam.c
src/bitBucket.h
src/mergeOne.c
src/RcppExports.cpp
src/util.h
src/intervalTree.cpp
src/util.cpp
src/intervalNode.h
src/intervalDensity.h
src/bitBucket.cpp
src/bedReader.h
src/bam_plbuf.c
src/nodeGroup.cpp
src/reader.cpp
src/reader.h
src/sequence.h
src/bamReader.h
src/bedReader.cpp
src/bamReader.cpp
src/iBucket.cpp
src/intervalNode.cpp
src/iBucket.h
src/croi_func.cpp
src/intervalSet.h
src/croi_main.cpp
src/interval.h
src/nodeGroup.h
src/merge.cpp
inst/NEWS.Rd
inst/CITATION
inst/doc/DiffBind.R
inst/doc/DiffBind.Rnw
inst/doc/DiffBind.pdf
inst/extra/tamoxifen_allfields.csv
inst/extra/tamoxifen.csv
inst/extra/ktypes.rda
inst/extra/GenerateSpikein.R
inst/extra/config.csv
inst/extra/GenerateDataFiles.R
inst/extra/spikes.rda
inst/extra/tamoxifen_GEO.R
inst/extra/tamoxifen_GEO.csv
inst/extra/parallelFactor.rda
inst/extra/testdata/bed_without_header.bed.gz
inst/extra/testdata/bed_with_header.bed.gz
inst/extra/testdata/test_sampleSheet_comment_char.csv
inst/extra/testdata/raw_with_header.raw.gz
inst/extra/testdata/test_sampleSheet_Spaces.xlsx
inst/extra/testdata/raw_without_header.raw.gz
inst/extra/testdata/test_sampleSheet_Spaces.csv
inst/extra/peaks/MCF7_ER_1.bed.gz
inst/extra/peaks/BT474_ER_2.bed.gz
inst/extra/peaks/TAMR_ER_1.bed.gz
inst/extra/peaks/T47D_ER_2.bed.gz
inst/extra/peaks/MCF7_ER_2.bed.gz
inst/extra/peaks/ZR75_ER_1.bed.gz
inst/extra/peaks/TAMR_ER_2.bed.gz
inst/extra/peaks/BT474_ER_1.bed.gz
inst/extra/peaks/MCF7_ER_3.bed.gz
inst/extra/peaks/T47D_ER_1.bed.gz
inst/extra/peaks/ZR75_ER_2.bed.gz
build/vignette.rds
tests/testthat.R
tests/testthat/test_loadSampleSheet.R
tests/testthat/test_readPeaks.R
tests/testthat/test_saveload.R
tests/testthat/test_normalize.R
tests/testthat/test_cmerge.R
tests/testthat/test_csort.R
vignettes/DiffBind.Rnw
vignettes/DiffBind.bib
data/datalist
data/tamoxifen_peaks.rda
data/tamoxifen_counts.rda
data/tamoxifen_analysis.rda
data/tamoxifen_greylist.rda
man/dba.load.Rd
man/DiffBind-package.Rd
man/dba.peakset.Rd
man/dba.normalize.Rd
man/dba.show.Rd
man/dba.analyze.Rd
man/dba.plotPCA.Rd
man/dba.Rd
man/DiffBind3.Rd
man/dba.count.Rd
man/dba.plotBox.Rd
man/dba.mask.Rd
man/dba.blacklist.Rd
man/dba.plotHeatmap.Rd
man/print.DBA.Rd
man/dba.save.Rd
man/dba.plotVolcano.Rd
man/dba.plotVenn.Rd
man/dba.contrast.Rd
man/dba.plotMA.Rd
man/DiffBind-globals.Rd
man/dba.report.Rd
man/tamoxifen.Rd
man/dba.overlap.Rd
