generateMergeTable {txcutr} | R Documentation |
Generate Merge Table
generateMergeTable(txdb, minDistance = 200) ## S4 method for signature 'TxDb' generateMergeTable(txdb, minDistance = 200L)
txdb |
an object representing a transcriptome |
minDistance |
the minimum separation to regard overlapping transcripts as unique |
a data.frame
with three columns
- tx_in
the input transcript
- tx_out
the transcript merged into
- gene_out
the gene merged into
a data.frame
with three columns
- tx_in
the input transcript
- tx_out
the transcript merged into
- gene_out
the gene merged into
library(TxDb.Scerevisiae.UCSC.sacCer3.sgdGene) ## load annotation txdb <- TxDb.Scerevisiae.UCSC.sacCer3.sgdGene ## restrict to 'chrI' transcripts seqlevels(txdb) <- c("chrI") ## last 500 nts per tx txdb_w500 <- truncateTxome(txdb) txdb_w500 ## last 100 nts per tx txdb_w100 <- truncateTxome(txdb, maxTxLength=100) txdb_w100