Add new taxonomic rank to a phyloseq object. — add_new_taxonomy_pq • MiscMetabar

One of main use of this function is to add taxonomic assignment from a new database.

Usage

add_new_taxonomy_pq(physeq, ref_fasta, suffix = NULL, ...)

Arguments

physeq: (required): a phyloseq-class object obtained using the phyloseq package.
ref_fasta: (required) A link to a database. Pass on to dada2::assignTaxonomy.
suffix: (character) The suffix to name the new columns. If set to NULL (the default), the basename of the file reFasta is used.
...: Others arguments pass on to dada2::assignTaxonomy.

Value

A new phyloseq-class object with a larger slot tax_table"

Author

Adrien Taudière