show_mothur_cutoffs: Show cutoff values available in a mothur file.

In phyloseq: Handling and analysis of high-throughput microbiome census data

Description

This is a helper function to report back to the user the different cutoff values available in a given mothur file – for instance, a list or shared file.

Usage

show_mothur_cutoffs(mothur_list_file)

Arguments

mothur_list_file

The file name and/or location as produced by mothur.

Value

A character vector of the different cutoff values contained in the file. For a given set of arguments to the cluster() command from within mothur, a number of OTU-clustering results are returned in the same file. The exact cutoff values used by mothur can vary depending on the input data/parameters. This simple function returns the cutoffs that were actually included in the mothur output. This an important extra step prior to importing data with the import_mothur function.

See Also

import_mothur

phyloseq documentation built on Nov. 8, 2020, 6:41 p.m.