txNames {ORFik} | R Documentation

## Get transcript names from orf names

### Description

names must either be a column called names, or the names of the grl object

### Usage

    txNames(grl, unique = FALSE)

### Arguments

`grl` | a `GRangesList` grouped by ORF or GRanges object
`unique` | a boolean, if true unique the names, used if several orfs map to same transcript and you only want the unique groups

### Value

a character vector of transcript names, without _* naming

### See Also

Other ORFHelpers: `defineTrailer`, `longestORFs`, `mapToGRanges`, `orfID`, `startCodons`, `startSites`, `stopCodons`, `stopSites`, `uniqueGroups`, `uniqueOrder`

### Examples

    gr_plus <- GRanges(seqnames = c("chr1", "chr1"),
                       ranges = IRanges(c(7, 14), width = 3),
                       strand = c("+", "+"))
    gr_minus <- GRanges(seqnames = c("chr2", "chr2"),
                        ranges = IRanges(c(4, 1), c(9, 3)),
                        strand = c("-", "-"))
    grl <- GRangesList(tx1_1 = gr_plus, tx2_1 = gr_minus)
    # there are 2 orfs, both the first on each transcript
    txNames(grl)

[Package ORFik version 1.2.1 Index]