Xenome

Classifies reads from xenograft sources

https://github.com/data61/gossamer/blob/master/docs/xenome.md

The module parsed results generated by the xenome classify command.

Note: MultiQC parses the standard output from xengsort, hence one has to redirect command line output to a file in order to use it with the MultiQC module. Also note that the tool does not register any sample name information in the output, so MultiQC attempts to fetch the sample name from the file name by default. Example command that would help MultiQC recognize data for a sample named "SAMPLE":

xenome classify -P idx --pairs -i in_1.fastq -i in_2.fastq > SAMPLE.txt

File search patterns

xenome:
  contents: "B\tG\tH\tM\tcount\tpercent\tclass"
  num_lines: 2