Files in BrendelGroup/TSRchitect
Promoter identification from large-scale TSS profiling data
DESCRIPTION
INSTALL.md
LICENSE
NAMESPACE
NEWS
R/Allclasses.R
R/Get-methods.R
R/Show-methods.R
R/TSRchitectUsersGuide.R
R/addAnnotationToTSR.R
R/addTagCountsToTSR.R
R/bedToTSS.R
R/clustering-functions.R
R/createSummarizedExperiment.R
R/detTSR.R
R/determineTSR.R
R/gsq2bed.R
R/importAnnotationExternal.R
R/importAnnotationHub.R
R/inputToTSS.R
R/loadTSSobj.R
R/makeGRangesFromTSR.R
R/mergeSampleData.R
R/prcTSS.R
R/processTSS.R
R/writeTSR.R
R/writeTSS.R
README.md
Singularity
demo/HOWTO.md
demo/xdemo1
demo/xdemo2
demo/xdemo3
inst/CITATION
inst/doc/TSRchitectUsersGuide.Rmd
inst/doc/TSRchitectUsersGuide.html
inst/doc/TSRchitectUsersGuide.pdf
inst/extdata/AtEST.gsq
inst/extdata/Perl/gsq2bed.pl
inst/extdata/bamFiles/sample1-rep1.bam
inst/extdata/bamFiles/sample1-rep2.bam
inst/extdata/bamFiles/sample2-rep1.bam
inst/extdata/bamFiles/sample2-rep2.bam
inst/extdata/bedFiles/sample1-rep1.bed
inst/extdata/bedFiles/sample1-rep2.bed
inst/extdata/bedFiles/sample2-rep1.bed
inst/extdata/bedFiles/sample2-rep2.bed
inst/extdata/gencode.v19.chr22.transcript.gff3
inst/extdata/tssObjectExample.RData
man/TSRchitectUsersGuide.Rd
man/TSRmshapeIndex.Rd
man/TSRshapeIndex.Rd
man/addAnnotationToTSR-methods.Rd
man/addTagCountsToTSR-methods.Rd
man/bedToTSS-methods.Rd
man/createSummarizedExperiment-methods.Rd
man/detTSR-methods.Rd
man/determineTSR-methods.Rd
man/getBamDataFirstRead-methods.Rd
man/getBamDataLastRead-methods.Rd
man/getFileNames-methods.Rd
man/getTSRdata-methods.Rd
man/getTSScountData-methods.Rd
man/getTSStagData-methods.Rd
man/getTitle-methods.Rd
man/gsq2bed-methods.Rd
man/importAnnotationExternal-methods.Rd
man/importAnnotationHub-methods.Rd
man/inputToTSS-methods.Rd
man/loadTSSobj-methods.Rd
man/makeGRangesFromTSR-methods.Rd
man/mergeSampleData-methods.Rd
man/prcTSS.Rd
man/processTSS-methods.Rd
man/tagCountTSS.Rd
man/tsrCluster.Rd
man/tssArrayProperties.Rd
man/tssObject.Rd
man/writeTSR-methods.Rd
man/writeTSS-methods.Rd
vignettes/TSRchitect.Rmd
