Read one or more FASTA files into seq_data format — read_fasta

`file` reads a single FASTA file; `files` reads multiple files at once and combines them. `files` accepts a character vector of literal paths and/or wildcard patterns (e.g. `"examples/fasta/*.fna"`).

Usage

read_fasta_lengths(file = NULL, files = NULL, header_delim = NULL)

Arguments

file: Optional path to a single FASTA file.
files: Optional character vector of FASTA files (literal paths and/or wildcard patterns). All matched files are read and combined.
header_delim: Optional character. When given, each header is split at every occurrence of this delimiter and only the first piece is kept.

Value

A data.frame with columns `seq_id` and `length`.

Examples

library(ggchord)
fasta <- tempfile(fileext = ".fna")
writeLines(c(">seqA some description", "ACGTACGTACGTACGT", "ACGTACGT",
             ">seqB", "TTTTGGGG"), fasta)
read_fasta_lengths(fasta)
#>   seq_id length
#> 1   seqA     24
#> 2   seqB      8