xengsort

Description

The module parses results generated by the xengsort classify command.

Note - MultiQC parses the standard out 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.

For example, if your xengsort command was:

xengsort classify --index myindex \
  --fastq paired.1.fq.gz --pairs paired.2.fq.gz \
  --prefix myresults \
  --classification count \
  > sample.txt

File search patterns

xengsort:
  contents: "# Xengsort classify"
  num_lines: 2