Format a fasta database in dada2 format

First format in sintax format and then in dada2 format

Usage

format2dada2(
  fasta_db = NULL,
  taxnames = NULL,
  output_path = NULL,
  from_sintax = TRUE,
  pattern_to_remove = NULL,
  ...
)

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.
output_path: (optional) A path to an output fasta files. Only used if fasta_db is set.
from_sintax: (logical, default FALSE) Is the original fasta file in sintax format?
pattern_to_remove: (a regular expression) Define a pattern to remove. For example, pattern_to_remove = "\|rep.*" remove all character after '|rep' to force dada2::assignTaxonomy() to not use the database as a Unite-formated database
...: Additional arguments passed on to format2sintax() function

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

Adrien Taudière