snpeff

The SnpEff module parses results generated by SnpEff, a genetic variant annotation and effect prediction toolbox. It annotates and predicts the effects of variants on genes (such as amino acid changes).

MultiQC parses the summary .csv file that is generated by SnpEff. Note that you must run SnpEff with -csvStats <filename> for this to be generated. See the SnpEff documentation for more information.