linkChunks {ProActive} | R Documentation |
Link pattern-matches on contig/genome chunks
Description
Detect partial gap/elevation pattern matches that fall on the edges of chunked genomes/contigs that may be part of the same pattern prior to chunking
Usage
linkChunks(bestMatchList, pileup, windowSize, mode, verbose)
Arguments
bestMatchList |
A list containing pattern-match information associated with all contigs/chunks classified by 'ProActive()' pattern-matching |
pileup |
A .txt file containing mapped sequencing read coverages averaged over 100 bp windows/bins. |
windowSize |
The number of basepairs to average read coverage values over. |
mode |
Either "genome" or "metagenome" |
verbose |
TRUE or FALSE. Print progress messages to console. Default is TRUE. |
[Package ProActive version 0.1.0 Index]