count_transcripts {polyester} | R Documentation

## determine how many transcripts are annotated in a FASTA or GTF file

### Description

determine how many transcripts are annotated in a FASTA or GTF file

### Usage

    count_transcripts(f, fasta = TRUE, identifier = "transcript_id",
      attrsep = "; ")

### Arguments

`f` | character, path to a file in FASTA or GTF format
`fasta` | TRUE if `f` is a fasta file; FALSE if `f` is a GTF file
`identifier` | if `f` is a GTF file, how are transcripts identified in the attributes field (9th column) of the file? Default `transcript_id`.
`attrsep` | if `f` is a GTF file, how are attributes separated in the attributes field (9th column) of the file? Default "; ".

### Value

Number of transcripts annotated in `f`

### Examples

    fastapath = system.file("extdata", "chr22.fa", package="polyester")
    count_transcripts(fastapath) #918

[Package polyester version 1.22.0 Index]