biom.string {taxonomy_kit} R Documentation

cast taxonomy object to biom style taxonomy string

Description

Usage

biom.string(taxonomy,
    trim.genusName = FALSE);

Arguments

taxonomy

-

trim.genusName

removes the genus name from the species name?. [as boolean]

env

[as Environment]

Details

Authors

metagenomics_kit

Value

this function returns data object of type string.

clr value class

Examples

 # parse the string as taxonomy object
 let tax = biom_string.parse(["k__Bacteria; p__Firmicutes; c__Clostridia; o__Clostridiales; f__Lachnospiraceae; g__Robinsoniella; s__peoriensis"]);
 # then convert back the taxonomy object as the string content
 print(biom.string(tax));
[Package taxonomy_kit version 1.0.0.0 Index]