Files in UofABioinformaticsHub/rnaCleanR

Calculate strandness information of a bam file

R/aaa.R R/calculateStrandCoverage.R R/calculateStrandNbReads.R R/checkPairedEnd.R R/concatenateAlignments.R R/filterDNA.R R/getStrandFromBamFile.R R/getStrandFromReadInfo.R R/getWinInSequence.R R/getWinOverlapEachIRange.R R/getWinOverlapEachReadFragment.R R/getWinOverlapGRanges.R R/intersectWithFeature.R R/keptProbaWin.R R/keptReadFragment.R R/plotHist.R R/plotWin.R R/sequenceInfoInPartition.R R/summarizeHist.R README.Rmd README.md man/checkPairedEnd.Rd man/dot-calculateStrandCoverage.Rd man/dot-calculateStrandNbReads.Rd man/dot-concatenateAlignments.Rd man/dot-getWinInSequence.Rd man/dot-keptProbaWin.Rd man/dot-keptReadFragment.Rd man/dot-sequenceInfoInPartition.Rd man/dot-summarizeHist.Rd man/filterDNA.Rd man/getStrandFromBamFile.Rd man/getStrandFromReadInfo.Rd man/getWinOverlapEachIRange.Rd man/getWinOverlapEachReadFragment.Rd man/getWinOverlapGRanges.Rd man/intersectWithFeature.Rd man/plotHist.Rd man/plotWin.Rd man/strandCheckR-package.Rd paper/paper.md tests/testthat.R tests/testthat/test_calculateStrandCoverage.R tests/testthat/test_calculateStrandNbReads.R tests/testthat/test_checkPairedEnd.R tests/testthat/test_concatenateAlignments.R tests/testthat/test_filterDNA.R tests/testthat/test_getStrandFromBamFile.R tests/testthat/test_getStrandFromReadInfo.R tests/testthat/test_getWinIdFromIRanges.R tests/testthat/test_getWinIdOverlapAlignments.R tests/testthat/test_getWinInSequence.R tests/testthat/test_keptProbaWin.R tests/testthat/test_keptReadFragment.R tests/testthat/test_plotHist.R tests/testthat/test_plotWin.R tests/testthat/test_sequenceInfoInPartition.R tests/testthat/test_summarizeHist.R vignettes/strandCheckR.Rmd