v2.1.0 'Elemer'

What's Changed

Release v2.1.0 'Elemer' by @pcrxn in #20

Fixed

• Treat an empty KMA .res file as NULL when merging mapping results by @pcrxn in #18
• Check for duplicated rows in --input samplesheet.csv by @pcrxn in #19

Full Changelog: 2.0.0...2.1.0

v2.0.0 'Victoria'

This release of BaitCapture improves greatly upon v1.0.0, with several added features including:

• Custom alignment and summary statistics report tables, which are outputted to a summary/ directory
• Ability to define thresholds for target detection on the command-line
• Ability to provide a target metadata file on the command-line for cluster-level detection
• Option to report all undetected targets in outputs
• KMA as a new (and default) aligner
• fastp for adapter removal and read trimming
• Mosdepth for a nice overview of read alignments in the MultiQC report

1.0.0

What's Changed

• First draft of workflow by @pcrxn in #1
• Add Conda, Docker, and Singularity as options for package management by @pcrxn in #2
• Add kma as an alignment tool by @pcrxn in #3
• Add host decontamation by @pcrxn in #4
• Use BWA-MEM2 for host decontamination by @pcrxn in #5
• Subworkflow refactor by @pcrxn in #6
• Refactor code by @pcrxn in #7
• Add kma as an optional aligner by @pcrxn in #8
• Add bwa mem by @pcrxn in #9
• v1.0.0_dev by @pcrxn in #10

New Contributors

• @pcrxn made their first contribution in #1

Full Changelog: https://github.com/OLC-Bioinformatics/BaitCapture/commits/1.0.0