2.2.1

Features:

• Protect bam output
• Speed-up with wildcards constraints
• Speed-up Picard with BAI inclusion in input files
• Changed output directory order

2.2.0

Features

• fastp reports included in snakemake report
• fair_genome_indexer pipeline version updated to 2.2.0
• snakemake wrappers version updated to v3.0.0
• Description of expected results with directoy architecture

2.1.0

Features:

• Add report texts
• Fastp-trimming (reports included in MultiQC)

Documentation

• Fastp citation

1.0.0

Features:

• Download-index reference genome if missing
• Build bowtie2-index if missing
• Align reads
• Perform post-mapping QC with picard and aggregate reports with MultiQC