summariseExonTypes {GeneStructureTools} | R Documentation |
Summarise exon biotypes to broader categories
summariseExonTypes(types)
types |
vector of exon biotypes |
vector of broader exon biotypes
Beth Signal
Other DEXSeq processing methods: DEXSeqIdsToGeneIds
,
findDEXexonType
gtfFile <- system.file("extdata","example_gtf.gtf", package = "GeneStructureTools") DEXSeqGtfFile <- system.file("extdata","gencode.vM14.dexseq.gtf", package = "GeneStructureTools") gtf <- rtracklayer::import(gtfFile) gtf <- UTR2UTR53(gtf) DEXSeqGtf <- rtracklayer::import(DEXSeqGtfFile) findDEXexonType("ENSMUSG00000032366.15:E028", DEXSeqGtf, gtf) DEXSeqResultsFile <- system.file("extdata","dexseq_results_significant.txt", package = "GeneStructureTools") DEXSeqResults <- read.table(DEXSeqResultsFile, sep="\t") types <- findDEXexonType(rownames(DEXSeqResults), DEXSeqGtf, gtf) summarisedTypes <- summariseExonTypes(types) table(types, summarisedTypes)