Files in RamsinghLab/arkas_staging
A package that complements Kallisto for quick, informative *seq analysis
.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
NAMESPACE
R/.fitBundles.R.swp
R/.geneWiseAnalysis.R.swp
R/.mergeKallisto.R.swp
R/KEtoSE.R
R/KallistoExperiment-class.R
R/KallistoExperiment-methods.R
R/KallistoExperiment.R
R/SEtoKE.R
R/annotateFeatures.R
R/calcTpm.R
R/collapseBundles.R
R/collapseByTss.R
R/collapseTpm.R
R/collapseTranscripts.R
R/crossModels.R
R/data.R
R/dumpToBigWig.R
R/extractIndexName.R
R/fastqFileUploadToBaseSpace.R
R/fetchAppSession.R
R/fetchKallisto.R
R/fitBundles.R
R/fitRepeats.R
R/fitTranscripts.R
R/geneWiseAnalysis.R
R/getKallistoVersion.R
R/indexKallisto.R
R/mergeKallisto.R
R/pairFastqFiles.R
R/parseFastqNames.R
R/remapSymbols.R
R/repeatWiseAnalysis.R
R/rpkmToTpm.R
R/runKallisto.R
R/ruvNormalization.R
R/showTnxBundles.R
R/sraFastqHeaderToIlluminaStandard.R
R/transcriptWiseAnalysis.R
README.md
data/ERCC_annotated.rda
data/unannotatedTranscript.rda
inst/bin/convertFastqFileToIlluminaStd.sh
inst/bin/fastqConvert2.sh
inst/bin/fastqConvert3.sh
inst/bin/fastqConvert_NoRunId.sh
inst/bin/fastqHeaderConvert.sh
inst/extdata/Appsession.JSON
inst/extdata/NS.JSON
inst/extdata/example.png
man/ERCC_annotated.Rd
man/KEtoSE.Rd
man/KallistoExperiment-class.Rd
man/KallistoExperiment.Rd
man/SEtoKE.Rd
man/annotateFeatures.Rd
man/calcTpm.Rd
man/collapseBundles.Rd
man/collapseByTss.Rd
man/collapseTpm.Rd
man/collapseTranscripts.Rd
man/crossModels.Rd
man/dumpToBigWig.Rd
man/extractIndexName.Rd
man/fastqFileUploadToBaseSpace.Rd
man/fetchAppSession.Rd
man/fetchKallisto.Rd
man/fitBundles.Rd
man/fitRepeats.Rd
man/fitTranscripts.Rd
man/geneWiseAnalysis.Rd
man/getKallistoVersion.Rd
man/indexKallisto.Rd
man/mergeKallisto.Rd
man/pairFastqFiles.Rd
man/parseFastqNames.Rd
man/remapSymbols.Rd
man/repeatWiseAnalysis.Rd
man/rpkmToTpm.Rd
man/runKallisto.Rd
man/ruvNormalization.Rd
man/showTnxBundles.Rd
man/sraFastqHeaderToIlluminaStandard.Rd
man/transcriptWiseAnalysis.Rd
man/unannotatedTranscript.Rd
vignettes/arkaBibliography.bib
vignettes/arkas.Rmd
vignettes/calculateTpms.Rmd
vignettes/example.Rmd
vignettes/geneWiseAnalysis.Rmd
vignettes/gwa-safeExit.Rmd
