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rseqc

The RSeQC module parses results generated by RSeQC, a package that provides a number of useful modules that can comprehensively evaluate high throughput RNA-seq data.

Supported scripts:

  • bam_stat
  • gene_body_coverage
  • infer_experiment
  • inner_distance
  • junction_annotation
  • junction_saturation
  • read_distribution
  • read_duplication
  • read_gc
  • tin

You can choose to hide sections of RSeQC output and customise their order. To do this, add and customise the following to your MultiQC config file:

rseqc_sections:
  - read_distribution
  - tin
  - gene_body_coverage
  - inner_distance
  - read_gc
  - read_duplication
  - junction_annotation
  - junction_saturation
  - infer_experiment
  - bam_stat

Change the order to rearrage sections or remove to hide them from the report.

Note that some scripts (for example, junction_annotation.py) produce the results used by MultiQC as standard-error. To use with MultiQC, make sure that you redirect this to a file using 2> mysample.log.