dadaist2-assigntax

dadaist2-assigntax - Assign Taxonomy

Author

Andrea Telatin andrea.telatin@quadram.ac.uk

Usage

dadaist2-assigntax [options] -i FASTA -o DIR -r REFERENCE 

• -m, –method

  Taxonomy assignment method, either DECIPHER or DADA2 (default: DECIPHER)

• -i, –input FASTA

  Input file in FASTA format (or in DADA2 table format)

• -o, –outdir DIR

  Output directory, or the current working directory if not specified.

• -f, –fasta FILE

  Save taxonomy assigned FASTA file.

• -r, –reference FILE

  RData file with the training set in DECIPHER format.

• -t, –threads INT

  Number of threads to use.

• -u, –underscore-join

  Join taxa names that have spaces with an underscore (default: use double quotes)

Source code and documentation

The program is freely available at https://quadram-institute-bioscience.github.io/dadaist2 released under the MIT licence. The website contains further DOCUMENTATION.