v5.0.1

What's Changed

• New England Biolabs UMI support by @mvcowley in #34
• Handle empty output from decombinator by @mvcowley in #35
• Handle empty FASTQ files gracefully by @mvcowley in #36
• Add logo by @mvcowley in #37
• Add support for Takara Bio SMART-Seq Human TCR (with UMIs) by @mvcowley in #38
• Make decombine.fastq_check() raise clear errors by @mvcowley in #39

Full Changelog: v5.0.0...build-release-workflow

5.0.0

Release Notes

This release makes decombinator a CLI application, provides a performance boost to the collapsing step of the pipeline, and enables installation from PyPI.

Enhancements

• Application is now hosted on PyPI
• argparse subparsers used to create CLI app with 4 different modes: pipeline, decombine, collapse, translate
• Symmetric deletion algorithm (as implemented in pyrepseq) collapses similar UMIs together -- 24x speedup when high UMI diversity present
• scipy.sparse used for 2x memory saving in collapsing step
• Integration and unit testing suite
• Releases and testing pipelines added

Documention

• Streamlined readme with updated instructions for new CLI app

Install decombinator 5.0.0

pip install decombinator