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Changelog

All notable changes to this project will be documented in this file.

The format is based on Keep a Changelog, and this project adheres to Semantic Versioning.

[Unreleased]

[1.2.2] - 2025-07-21

Added

Integrated pytest to ensure correct handling of the variant_caller parameter.

Changed

Update the standard names for the variant_caller parameter
- Changed sanger to caveman
- TCGA and standardVC have been merged into a more flexible standard option.
- standard is now default and parses VAF from 8th and 10th columns of VCF files (VAF= or AF=).

Fixed

Plotting Stability: Added error handling to skip samples that are invalid and proceed with valid ones.
Resolved a potential index out-of-bounds error in the plot_hist function.

[1.2.1] - 2025-04-02

Changed

Add centromere coordinates for mm39 genome.

[1.2.0] - 2024-02-24

Changed

Updated dependencies: Now requires Pandas >= 2.0.0, NumPy >= 2.0.0, and Python >= 3.9.
Dropped support for Python 3.8

[1.1.3] - 2024-10-31

Added

Added support for Variant Allele Frequency (VAF) values from the following variant callers:
- Sanger
- TCGA
- standardVC
- Mutect2