Files in circRNAprofiler
circRNAprofiler: An R-Based Computational Framework for the Downstream Analysis of Circular RNAs
NEWS.md
README.md
circRNAprofiler documentation built on March 6, 2021, 2 a.m.
NAMESPACE
DESCRIPTION
R/importFilesPredictionTool.R
R/getSeqsFromGRs.R
R/getRandomBSJunctions.R
R/getCircSeqs.R
R/getDeseqRes.R
R/getEdgerRes.R
R/annotateBSJs.R
R/getMotifs.R
R/data.R
R/getRegexPattern.R
R/initCircRNAprofiler.R
R/annotateRepeats.R
R/filterCirc.R
R/getPlots.R
R/getMirSites.R
R/supportFunctions.R
R/getBackSplicedJunctions.R
R/formatGTF.R
R/checkProjectFolder.R
R/liftBSJcoords.R
R/getSeqsAcrossBSJs.R
R/annotateSNPsGWAS.R
inst/doc/circRNAprofiler.Rmd
inst/doc/circRNAprofiler.html
inst/doc/circRNAprofiler.R
inst/extdata/experiment.txt
inst/extdata/miRs.txt
inst/extdata/circexplorer2/circRNAs_001.txt
inst/extdata/mapsplice/circRNAs_001.txt
inst/extdata/other/circRNAs_001.txt
inst/extdata/nclscan/circRNAs_001.txt
inst/extdata/circmarker/circRNAs_001.txt
inst/extdata/knife/circRNAs_001.txt
inst/extdata/projectCirc/traits.txt
inst/extdata/projectCirc/transcripts.txt
inst/extdata/projectCirc/experiment.txt
inst/extdata/projectCirc/motifs.txt
inst/extdata/projectCirc/miRs.txt
inst/extdata/projectCirc/mapsplice/circRNAs_002.txt
inst/extdata/projectCirc/mapsplice/circRNAs_004.txt
inst/extdata/projectCirc/mapsplice/circRNAs_003.txt
inst/extdata/projectCirc/mapsplice/circRNAs_008.txt
inst/extdata/projectCirc/mapsplice/circRNAs_009.txt
inst/extdata/projectCirc/mapsplice/circRNAs_001.txt
inst/extdata/projectCirc/mapsplice/circRNAs_005.txt
inst/extdata/projectCirc/mapsplice/circRNAs_007.txt
inst/extdata/projectCirc/mapsplice/circRNAs_006.txt
inst/extdata/projectCirc/nclscan/circRNAs_002.txt
inst/extdata/projectCirc/nclscan/circRNAs_004.txt
inst/extdata/projectCirc/nclscan/circRNAs_003.txt
inst/extdata/projectCirc/nclscan/circRNAs_008.txt
inst/extdata/projectCirc/nclscan/circRNAs_009.txt
inst/extdata/projectCirc/nclscan/circRNAs_001.txt
inst/extdata/projectCirc/nclscan/circRNAs_005.txt
inst/extdata/projectCirc/nclscan/circRNAs_007.txt
inst/extdata/projectCirc/nclscan/circRNAs_006.txt
inst/extdata/projectCirc/circmarker/circRNAs_002.txt
inst/extdata/projectCirc/circmarker/circRNAs_004.txt
inst/extdata/projectCirc/circmarker/circRNAs_003.txt
inst/extdata/projectCirc/circmarker/circRNAs_008.txt
inst/extdata/projectCirc/circmarker/circRNAs_009.txt
inst/extdata/projectCirc/circmarker/circRNAs_001.txt
inst/extdata/projectCirc/circmarker/circRNAs_005.txt
inst/extdata/projectCirc/circmarker/circRNAs_007.txt
inst/extdata/projectCirc/circmarker/circRNAs_006.txt
inst/extdata/uroborus/circRNAs_001.txt
build/vignette.rds
tests/testthat.R
tests/testthat/test_getSeqsAcrossBSJs.R
tests/testthat/test_getSeqsFromGRs.R
tests/testthat/test_formatGTF.R
tests/testthat/test_annotateRepeats.R
tests/testthat/test_annotateBSJs.R
tests/testthat/test_getRandomBSJunctions.R
tests/testthat/test_getMirSites.R
tests/testthat/test_getRegexPattern.R
tests/testthat/test_importFilesPredictionTool.R
tests/testthat/test_getMotifs.R
tests/testthat/test_filterBSJs.R
tests/testthat/test_getCircSeqs.R
tests/testthat/test_getBackSplicedJunctions.R
tests/testthat/testdata/traits.txt
tests/testthat/testdata/mature.fa
tests/testthat/testdata/ncbi38.gtf
tests/testthat/testdata/transcripts.txt
tests/testthat/testdata/gencode.v27.gtf
tests/testthat/testdata/gencodeVM16.gtf
tests/testthat/testdata/UCSCmm10.gtf
tests/testthat/testdata/experiment.txt
tests/testthat/testdata/motifs.txt
tests/testthat/testdata/miRs.txt
tests/testthat/testdata/GRCm38.92.gtf
tests/testthat/testdata/mapsplice/circRNAs_002.txt
tests/testthat/testdata/mapsplice/circRNAs_004.txt
tests/testthat/testdata/mapsplice/circRNAs_003.txt
tests/testthat/testdata/mapsplice/circRNAs_001.txt
tests/testthat/testdata/mapsplice/circRNAs_005.txt
tests/testthat/testdata/mapsplice/circRNAs_006.txt
tests/testthat/testdata/other/circRNAs_002.txt
tests/testthat/testdata/other/circRNAs_004.txt
tests/testthat/testdata/other/circRNAs_003.txt
tests/testthat/testdata/other/circRNAs_001.txt
tests/testthat/testdata/other/circRNAs_005.txt
tests/testthat/testdata/other/circRNAs_006.txt
vignettes/traits.txt
vignettes/render_toc.R
vignettes/circRNAs_test.txt
vignettes/references.bib
vignettes/transcripts.txt
vignettes/circRNAprofiler.Rmd
vignettes/experiment.txt
vignettes/motifs.txt
vignettes/miRs.txt
vignettes/images/image2.png
vignettes/images/image1.png
vignettes/images/image3.png
vignettes/images/image4.png
data/datalist
data/attractSpecies.rda
data/gtf.rda
data/ahRepeatMasker.rda
data/iupac.rda
data/backSplicedJunctions.rda
data/ahChainFiles.rda
data/gwasTraits.rda
data/mergedBSJunctions.rda
data/memeDB.rda
data/miRspeciesCodes.rda
man/getRegexPattern.Rd
man/plotHostGenes.Rd
man/mergeBSJunctions.Rd
man/plotExBetweenBSEs.Rd
man/ahRepeatMasker.Rd
man/getDetectionTools.Rd
man/liftBSJcoords.Rd
man/getSeqsAcrossBSJs.Rd
man/importNCLscan.Rd
man/attractSpecies.Rd
man/getRandomBSJunctions.Rd
man/importCircExplorer2.Rd
man/getSeqsFromGRs.Rd
man/plotMotifs.Rd
man/filterCirc.Rd
man/getDeseqRes.Rd
man/mergedBSJunctions.Rd
man/annotateRepeats.Rd
man/plotMiR.Rd
man/mergeMotifs.Rd
man/ahChainFiles.Rd
man/formatGTF.Rd
man/getCircSeqs.Rd
man/gwasTraits.Rd
man/getEdgerRes.Rd
man/gtf.Rd
man/annotateBSJs.Rd
man/getMotifs.Rd
man/iupac.Rd
man/memeDB.Rd
man/rearrangeMiRres.Rd
man/initCircRNAprofiler.Rd
man/checkProjectFolder.Rd
man/getBackSplicedJunctions.Rd
man/importOther.Rd
man/importCircMarker.Rd
man/plotExPosition.Rd
man/getMiRsites.Rd
man/plotLenBSEs.Rd
man/plotTotExons.Rd
man/importMapSplice.Rd
man/miRspeciesCodes.Rd
man/importKnife.Rd
man/importUroborus.Rd
man/annotateSNPsGWAS.Rd
man/backSplicedJunctions.Rd
man/volcanoPlot.Rd
man/plotLenIntrons.Rd
