generate_oligo_files: Function to generate the oligos files needed by Mothur for...

In fmichonneau/labmanager: Manage barcoding data and more

Description

Function to generate the oligos files needed by Mothur for de-multiplexing

Usage

generate_oligo_files(run = "BCS-003", data = get_lab("pcr_metacommunity"),
  primers = "leray", barcodes = get_lab("tags_primers"), outdir)

Arguments

run	name of the sequencing run
data	table with metadata info about the run
primers	for now just leray for the usual COI leray primer combination
barcodes	the table with the correspondance between the primer tag names and their respective sequences
outdir	where the oligos files should be written

Details

Currently the function output oligo files with the same naming scheme as returned by ICBR but it might not be the best in the long run.

fmichonneau/labmanager documentation built on May 16, 2019, 1:44 p.m.