2.0.0

• Refactor code to modern Python (black, mypy, isort)
• Added Github Actions
• Added pre-commit hooks
• Changed the build configuration to Poetry
• Added a Docker container
• Changed tests to pytest
• Updated versions of dependencies
• Performed code optimizations, refactorings and clean ups
• Added more tests for almost full coveragge
• Bumped taggd to 0.4.0
• Changed documentation
• Added --demultiplex-chunk-size option
• Version 1.8.2

1.80.1

• Improved the unit-tests
• Make input data a positional arguments in extra scripts
• Fix a small bug when having the UMI before the BARCODE

ST Pipeline Release

• --ref-map is not a required parameter now when --disable_mapping is used
• Create dataset and compute saturation steps are only performed if the annotated
  file is present
• Fixed bug in merge_fastq
• Fixed bugs in st_qa

ST Pipeline Release

• Updated docs
• Added flags to skip (trimming, mapping and annotation)
• Fixed a bug in the compute saturation option
• Restored the unittests
• Improvements when dealing with ambiguous and no_feature genes

ST Pipeline release

Latest release