exportMergeTable {txcutr} | R Documentation |
Export Merge Table for Transcriptome
exportMergeTable(txdb, file, minDistance = 200L)
txdb |
a |
file |
a string or |
minDistance |
the minimum separation to regard overlapping transcripts as unique. |
The txdb
argument is invisibly returned.
library(TxDb.Scerevisiae.UCSC.sacCer3.sgdGene) ## load annotation txdb <- TxDb.Scerevisiae.UCSC.sacCer3.sgdGene ## restrict to 'chrI' transcripts (makes for briefer example runtime) seqlevels(txdb) <- c("chrI") ## last 500 nts per tx txdb_w500 <- truncateTxome(txdb) ## export plain format outfile <- tempfile("sacCer3.sgdGene.w500", fileext=".tsv") exportMergeTable(txdb_w500, outfile) ## export compressed format outfile <- tempfile("sacCer3.sgdGene.w500", fileext=".tsv.gz") exportMergeTable(txdb_w500, outfile)