PoolNFilterReads: PoolNFilterReads

In leholman/metabarTOAD: A group of simple functions for handling metabarcoding data

PoolNFilterReads

Description

This function pools and performs quality filtering on merged metabarcoding reads.

Usage

PoolNFilterReads(
  FastqMaxEE = 1,
  folderwfiles = "3.strippedreads",
  folderoutput = "4.pooledsamples",
  UsePrimerFile = FALSE,
  vsearchdest = "vsearch"
)

Arguments

FastqMaxEE	Maximum expected error of pooled sequences
folderwfiles	Folder containing fastq files to be processed. Default is 3.strippedreads.
folderoutput	Output folder for processed reads. Default is 4.pooledsamples.
UsePrimerFile	TRUE or FALSE, is a csv file provided containing primer information?
vsearchdest	Specify the location of the vsearch executable if PATH not configured appropriately.

Value

None

leholman/metabarTOAD documentation built on Aug. 27, 2023, 9:07 p.m.