Performs alignment of BS-Seq reads using bwameth
meta
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
reads
:file
List of input FastQ files of size 1 and 2 for single-end and paired-end data, respectively.
meta2
fasta
Input genome fasta file
meta3
index
:directory
Directory containing bwameth genome index
bam
*.bam
Output BAM file containing read alignments
*.{bam}
versions_bwameth
${task.process}
:string
The name of the process
bwameth
The name of the tool
bwameth.py --version | cut -f2 -d ' '
:eval
The expression to obtain the version of the tool
versions_samtools
samtools
samtools version | sed '1!d;s/.* //'
The expression to obtain the version of samtools
versions
Fast and accurate alignment of BS-Seq reads using bwa-mem and a 3-letter genome.
