Converts a FASTQ file to an unaligned BAM or SAM file.
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
reads{:bash}
:file
List of input FastQ files of size 1 and 2 for single-end and paired-end data, respectively.
bam{:bash}
*.bam{:bash}
Unaligned bam file
*.{bam}
versions{:bash}
versions.yml{:bash}
File containing software versions
versions.yml
A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.
