Write a FASTA formatted sequence file

Usage

write_fasta(data, filename = NULL, degap = FALSE)

Arguments

data: a strollur object
filename: a string containing the name of the output file. Default = 'dataset_name'.fasta
degap: a logical. Default = FALSE. When degap = TRUE, all gap characters will be removed from the sequences.

Value

name of FASTA file

Examples


miseq <- strollur::miseq_sop_example()
#> Added 2425 sequences.
#> Assigned 2425 sequence abundances.
#> Assigned 2425 sequence taxonomies.
#> Assigned 531 otu bins.
#> Assigned 2425 asv bins.
#> Assigned 63 phylotype bins.
#> Assigned 19 samples to treatments.
#> Assigned 171 samples distances.
#> Assigned 531 otu bin taxonomies.
#> Assigned 531 otu bin representative sequences.
#> Added a metadata report.
#> Added 2 resource references.
#> Added a contigs_report report.
strollur::write_fasta(miseq, tempfile())
#> [1] "/tmp/RtmpwFFDh8/file1e136197c70d"