txNamesWithLeaders {ORFik} | R Documentation

## Get the transcripts that have minimum lengths of leaders and cds.

### Description

Filter transcripts to those whohave 5' UTR, CDS, 3' UTR of some lengths, pick the longest per gene.

### Usage

    txNamesWithLeaders(txdb, minFiveUTR = 30L, minCDS = 150L,
      minThreeUTR = 30L)

### Arguments

`txdb` | a TxDb object from gtf
`minFiveUTR` | (integer) minimum bp for 5' UTR during filtering for the transcripts
`minCDS` | (integer) minimum bp for CDS during filtering for the transcripts
`minThreeUTR` | (integer) minimum bp for 3' UTR during filtering for the transcripts

### Value

a character vector of valid tramscript names

### Examples

    gtf_file <- system.file("extdata", "annotations.gtf", package = "ORFik")
    txdb <- GenomicFeatures::makeTxDbFromGFF(gtf_file, format = "gtf")
    txNames <- txNamesWithLeaders(txdb)

[Package ORFik version 1.2.1 Index]