Files in cummeRbund
Analysis, exploration, manipulation, and visualization of Cufflinks high-throughput sequencing data.

README
DESCRIPTION
NAMESPACE
inst/NEWS
inst/doc/cummeRbund-example-workflow.pdf inst/doc/cummeRbund-example-workflow.R
inst/doc/cummeRbund-manual.Rnw
inst/doc/cummeRbund-example-workflow.Rnw
inst/doc/cummeRbund-manual.pdf inst/doc/cummeRbund-manual.R
inst/extdata/splicing.diff
inst/extdata/cds.diff
inst/extdata/read_groups.info
inst/extdata/promoters.diff
inst/extdata/cds.count_tracking
inst/extdata/isoforms.read_group_tracking
inst/extdata/tss_group_exp.diff
inst/extdata/isoform_exp.diff
inst/extdata/genes.count_tracking
inst/extdata/genes.read_group_tracking
inst/extdata/gene_exp.diff
inst/extdata/cds.fpkm_tracking
inst/extdata/tss_groups.fpkm_tracking
inst/extdata/chr1_snippet.gtf
inst/extdata/tss_groups.read_group_tracking
inst/extdata/tss_groups.count_tracking
inst/extdata/isoforms.count_tracking
inst/extdata/cds_exp.diff
inst/extdata/cds.read_group_tracking
inst/extdata/run.info
inst/extdata/genes.fpkm_tracking
inst/extdata/cuffData_schema.sql
inst/extdata/isoforms.fpkm_tracking
inst/reports/runReport.Rmd
inst/reports/styles/report_style.css
vignettes/cuffData_schema.pdf
vignettes/cummeRbund-manual.Rnw
vignettes/cummeRbund-example-workflow.Rnw
vignettes/ENCODE_SCV.pdf R/tools.R R/methods-CuffSet.R R/methods-CuffGene.R R/database-setup.R R/methods-CuffData.R R/methods-CuffFeatureSet.R R/AllClasses.R R/methods-CuffDist.R R/methods-CuffFeature.R R/AllGenerics.R R/methods-CuffGeneSet.R man/csCluster.Rd man/JSdistFromP.Rd man/getSig.Rd man/diffData.Rd man/expressionBarplot.Rd man/JSdist.Rd man/getRepLevels.Rd man/sampleGeneSet.Rd man/csDensity.Rd man/getGeneId.Rd man/fpkmMatrix.Rd man/csHeatmap.Rd man/CuffFeatureSet-class.Rd man/getSigTable.Rd man/csScatter.Rd man/csDistHeat.Rd man/getFeatures.Rd man/PINK1.Rd man/distValues.Rd man/repFpkm.Rd man/runInfo.Rd man/findGene.Rd man/sigMatrix.Rd man/shannon.entropy.Rd man/samples.Rd man/sampleIDs.Rd man/dimensionality.Rd man/findSimilar.Rd man/makeprobs.Rd man/CuffDist-class.Rd man/getLevels.Rd man/JSdistVec.Rd man/cummeRbund-package.Rd man/csBoxplot.Rd man/countMatrix.Rd man/getGenes.Rd man/csSpecificity.Rd man/CuffData-class.Rd man/QCplots.Rd man/addFeatures.Rd man/CuffGeneSet-class.Rd man/readCufflinks.Rd man/fpkm.Rd man/CuffSet-class.Rd man/count.Rd man/csVolcano.Rd man/featureNames.Rd man/csClusterPlot.Rd man/CuffGene-class.Rd man/exploratory.Rd man/makeprobsvec.Rd man/dispersionPlot.Rd man/getGene.Rd man/expressionPlot.Rd man/features.Rd man/replicates.Rd man/csDendro.Rd man/MAplot.Rd man/CuffFeature-class.Rd
build/vignette.rds
data/sampleData.rda
data/sampleData.RData
cummeRbund documentation built on Nov. 1, 2018, 3:19 a.m.