pepmatch - PEPMatch 1.0

Stable release of PEPMatch 1.0. Waited for publication which is here

Since v0.9.0:

• Added ParallelMatcher which will optimize a specified number of CPU cores to run jobs in parallel
• Removed dependency on Levenshtein package; wrote own C extension for the Hamming distance portion
• New benchmarking script and revamped the milk allergen benchmark to reflect data from this paper
• Simplified all tests, which will run much faster for each commit
• Many bugs related to the output of the tool for each format
• Added .tsv output support
• Ruff linter to maintain proper code style

See the full changelog: v0.9.0...v1.0

- Python
Published by danielmarrama over 2 years ago

pepmatch - PEPMatch 0.9.0

First real stable PEPMatch release.

Since v0.8.0: - Completely refactored all of the codebase for better maintainability and readability - Unit tests for exact match, mismatch, and best match w/ GitHub workflows - Benchmarking portion works for all methods - Added feature to search discontinuous epitopes - Improve regex pattern matching for FASTA header extraction - Preprocessing option for Redis, to test for speed - Many bug fixes for outputting results

- Python
Published by danielmarrama over 3 years ago