Files in TSRchitect

Promoter identification from large-scale TSS profiling data

INSTALL.md README.md

NEWS

NAMESPACE

DESCRIPTION

LICENSE

Singularity

build/vignette.rds

R/writeTSS.R R/writeTSR.R R/Allclasses.R R/inputToTSS.R R/loadTSSobj.R R/clustering-functions.R R/addAnnotationToTSR.R R/Show-methods.R R/determineTSR.R R/gsq2bed.R R/processTSS.R R/importAnnotationExternal.R R/createSummarizedExperiment.R R/mergeSampleData.R R/Get-methods.R R/addTagCountsToTSR.R R/prcTSS.R R/detTSR.R R/makeGRangesFromTSR.R R/importAnnotationHub.R R/TSRchitectUsersGuide.R R/bedToTSS.R vignettes/TSRchitect.Rmd man/makeGRangesFromTSR-methods.Rd man/createSummarizedExperiment-methods.Rd man/gsq2bed-methods.Rd man/addTagCountsToTSR-methods.Rd man/getTSStagData-methods.Rd man/prcTSS.Rd man/getTSRdata-methods.Rd man/TSRshapeIndex.Rd man/getBamDataLastRead-methods.Rd man/determineTSR-methods.Rd man/getBamDataFirstRead-methods.Rd man/TSRmshapeIndex.Rd man/getFileNames-methods.Rd man/processTSS-methods.Rd man/getTSScountData-methods.Rd man/bedToTSS-methods.Rd man/loadTSSobj-methods.Rd man/importAnnotationHub-methods.Rd man/writeTSR-methods.Rd man/tagCountTSS.Rd man/mergeSampleData-methods.Rd man/writeTSS-methods.Rd man/tssObject.Rd man/addAnnotationToTSR-methods.Rd man/importAnnotationExternal-methods.Rd man/tsrCluster.Rd man/getTitle-methods.Rd man/detTSR-methods.Rd man/tssArrayProperties.Rd man/TSRchitectUsersGuide.Rd man/inputToTSS-methods.Rd

inst/CITATION

inst/doc/TSRchitectUsersGuide.html

inst/doc/TSRchitectUsersGuide.Rmd inst/doc/TSRchitect.R inst/doc/TSRchitect.Rmd

inst/doc/TSRchitect.html

inst/doc/TSRchitectUsersGuide.pdf

inst/extdata/gencode.v19.chr22.transcript.gff3

inst/extdata/tssObjectExample.RData

inst/extdata/AtEST.gsq

inst/extdata/bamFiles/sample1-rep2.bam

inst/extdata/bamFiles/sample2-rep2.bam

inst/extdata/bamFiles/sample2-rep1.bam

inst/extdata/bamFiles/sample1-rep1.bam

inst/extdata/bedFiles/sample2-rep1.bed

inst/extdata/bedFiles/sample1-rep2.bed

inst/extdata/bedFiles/sample1-rep1.bed

inst/extdata/bedFiles/sample2-rep2.bed

inst/extdata/Perl/gsq2bed.pl

TSRchitect documentation built on Nov. 8, 2020, 8:11 p.m.