v0.3.1

This release fixes some minor bugs. It

• bumps the Snakemake version requirement to v6.5. This is due to snakedeploy not working with singularity containers in previous versions of Snakemake.
• fixes issues with QC - the MultiQC report now includes fastp output, as well as FastQC output, as intended.
• adds files necessary to generate the report.
• adds snakefmt to the tests, and removes the snakemake-github-actions dependency

v0.3.0

This release restructures the config files by renaming units.tsv to samples.tsv. The separate units file is no longer necessary. The release also fixes wrapper versions - all wrappers now use version 0.75.0 of snakemake-wrappers, improving reproducibility. Minor improvements are also made to the tests.

v0.2.0

This release adds support for BWA-MEM2. Integration test still require work. The workflow has yet to prove itself in production.

v0.1.0-alpha

A first release! This workflow cleans reads using fastp, maps short reads using BWA-MEM, and performs variant calling with DeepVariant and GLnexus. Tests are implemented in the .tests directory.