Format a fasta database in dada2 format for Species assignment — format2dada2_species • MiscMetabar

First format in sintax format and then in dada2 format

Usage

format2dada2_species(
  fasta_db = NULL,
  taxnames = NULL,
  from_sintax = FALSE,
  output_path = NULL,
  ...
)

Arguments

fasta_db: A link to a fasta files
taxnames: A list of names to format. You must specify either fasta_db OR taxnames, not both.
from_sintax: (logical, default FALSE) Is the original fasta file in sintax format?
output_path: (optional) A path to an output fasta files. Only used if fasta_db is set.
...: Additional arguments passed on to format2sintax() function

Value

Either an object of class DNAStringSet or a vector of reformated names

See also

format2dada2_species(), format2sintax()

Author

Adrien Taudière