contigChunks {ProActive}R Documentation

'chunk' long contigs

Description

Subset long contigs in metagenome pileup into chunks for pattern-matching

Usage

contigChunks(pileup, chunkSize)

Arguments

pileup

A .txt file containing mapped sequencing read coverages averaged over 100 bp windows/bins.

chunkSize

If 'mode'="genome" OR if 'mode'="metagenome" and 'chunkContigs'=TRUE, chunk the genome or contigs, respectively, into smaller subsets for pattern-matching. ‘chunkSize' determines the size (in bp) of each ’chunk'. Default is 100000.


[Package ProActive version 0.1.0 Index]