Man pages for Bioconductor-mirror/IsoformSwitchAnalyzeR
An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)

analyzeCPATImport Result of External Sequence Analysis
analyzeIntronRetentionDetection of Intron Retion(s)
analyzeORFPredictiction of Transcript Open Reading Frame.
analyzePFAMImport Result of PFAM analysis
analyzeSignalPImport Result of SignalP Analysis
analyzeSwitchConsequencesAnalyze Consequences of Isoform Switches
expressionAnalysisPlotsPlots for Analyzing Expression and Isoform Usage
extractCallibarionStatusExtract Whether P-values were Corrected.
extractConsequenceSummaryAnalyze Switch Consequences
extractExpressionMatrixExtract Gene/Isoform Expression Matrix.
extractGenomeWideAnalysisGenome wide Analysis of Changes in Isoform Features
extractSequenceExtract nucloetide (and amino acid) sequence of transcripts.
extractSwitchSummarySummarize Isoform Switches test Result.
extractTopSwitchesExtract Top Isoform Switches.
importCufflinksDataImport CuffDiff (Cufflinks) Data Into R
importCufflinksGalaxyDataImport CuffDiff (Cufflinks) Data Into R
importGTFImport Transcripts from a GTF file into R
importIsoformExpressionImport expression data from Kallisto, Salmon or RSEM into R.
importRdataCreate SwitchAnalyzeRlist From Standard R Objects
isoformSwitchAnalysisCombinedIsoform Switch Analysis Workflow: Extract, Annoate and...
isoformSwitchAnalysisPart1Isoform Switch Analysis Workflow Part 1: Extract Isoform...
isoformSwitchAnalysisPart2Isoform Switch Analysis Workflow Part 2: Plot All Isoform...
isoformSwitchTestStatistical Test of Isoform Switching.
IsoformSwitchTestDRIMSeqStatistical Test for identifying Isoform Switching via...
preFilterFiltering of a switchAnalyzeRlist
prepareCuffExamplePrepare the Cufflinks example data
subsetSwitchAnalyzeRlistA function which subset all enteries in a switchAnalyzeRlist.
switchAnalyzeRlistCreate a switchAnalyzeRlist Object
switchPlotIsoform Switch Analysis Plot
switchPlotTopSwitchesCreating the Isoform Switch Analysis Plot for the Top...
switchPlotTranscriptPlot Transcript Structure and Annoation
testDataExample data for IsoformSwitchAnalyzeR
Bioconductor-mirror/IsoformSwitchAnalyzeR documentation built on June 10, 2017, 12:31 a.m.