process.BwaAlignment: Runs the BWA aligner

In HenrikBengtsson/aroma.seq: High-Throughput Sequence Analysis using the Aroma Framework

Description

Runs the BWA aligner on all input files. The generated BAM files are all sorted and indexed.

Usage

## S3 method for class 'BwaAlignment'
process(this, ..., skip=TRUE, force=FALSE, verbose=FALSE)

Arguments

...	Not used.
skip	If TRUE, already processed files are skipped.
verbose	See Verbose.

Value

Returns a BamDataSet.

Author(s)

Henrik Bengtsson

HenrikBengtsson/aroma.seq documentation built on Feb. 15, 2021, 2:21 a.m.