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Supported Tool

BCFtools is a set of utilities that manipulate variant calls in the Variant Call Format (VCF) and its binary counterpart BCF.


The Bcftools module parses results generated by Bcftools, a suite of programs for interacting with variant call data.

Supported commands: stats

Collapse complementary substitutions

In non-strand-specific data, reporting the total numbers of occurences for both changes in a comlementary pair - like A>C and T>G - might not bring any additional information. To collapse such statistics in the substitutions plot, you can add the following section into your configuration:

  collapse_complementary_changes: true

MultiQC will sum up all complementary changes and show only A>* and C>* substitutions in the resulting plot.

File search patterns

  contents: This file was produced by bcftools stats