convert_to_lefse: Convert to lefse-friendly

In econtijoch/Biomass-Workflow: Microbial Density Data Generation and Analysis Tools

Description

Convert to lefse-friendly

Usage

convert_to_lefse(table, sample = "X.SampleID", class = "Condition",
  subclass = NULL, depth = "Species")

Arguments

table	table from individual_scale output (compact_by_taxonomy), at a given taxonomy
sample	string to define column that contains sample ID's
class	string to define column that contains class groupings
subclass	string to define column that contains class groupings (optional)
depth	string defining taxonomic depth to go to (optional - default = 'Species')

Value

table that you can save as tab delimited file and pipe to LEFSE

econtijoch/Biomass-Workflow documentation built on May 15, 2019, 7:59 p.m.