get.pct.unalign: Get percent unaligned

In kstagaman/sharpton-lab-metaGTx.processing: Sharpton Lab Metagenomic & Metatranscriptomic Processing

Get percent unaligned

Description

This function extracts the humann log file from a tgz file and gets the percent unaligned sequences for both nucleotides and protein translations.

Usage

get.pct.unalign(match.pattern = "tgz$", location, out.file, n.cores = 1)

Arguments

match.pattern	character; pattern to match desired files and directories. Default is "tgz$"
location	character; path to directory with files/directories you want to manipulate.
out.file	character; path and name of output file.
n.cores	integer; if 1, will run serially, otherwise will extract in parallel utilzing up to the number of cores specified. Default is 1.

kstagaman/sharpton-lab-metaGTx.processing documentation built on Oct. 2, 2022, 4:39 p.m.