makeTaxonomyFasta_Silva: DEPRECATED in favor of 'makeTaxonomyFasta_SilvaNR"

In benjjneb/dada2: Accurate, high-resolution sample inference from amplicon sequencing data

DEPRECATED in favor of 'makeTaxonomyFasta_SilvaNR“

Description

This function creates the dada2 assignTaxonomy training fasta for the Silva .align file generated by the Mothur project.

Usage

makeTaxonomyFasta_Silva(fin, ftax, fout, compress = TRUE)

Details

## Silva release v128 path <- "~/Desktop/Silva/Silva.nr_v128" dada2:::makeTaxonomyFasta_Silva(file.path(path, "silva.nr_v128.align"), file.path(path, "silva.nr_v128.tax"), "~/tax/silva_nr_v128_train_set.fa.gz")

## Silva release v132 path <- "~/Desktop/Silva/Silva.nr_v132" dada2:::makeTaxonomyFasta_Silva(file.path(path, "silva.nr_v132.align"), file.path(path, "silva.nr_v132.tax"), "~/tax/silva_nr_v132_train_set.fa.gz")

benjjneb/dada2 documentation built on Feb. 1, 2024, 10:50 p.m.