v1.1.0 Bastareny

Updates

• Lots of updates in metrics and fixing bugs
• Updated output structure
• Many other updates

What's Changed

• Add mutdensity QCs per group by @FerriolCalvet in #382
• Handle all python script inputs with click by @FerriolCalvet in #381
• add plotting of profiles similarity by @FerriolCalvet in #384
• flag failing omegas by @FerriolCalvet in #386
• Use a custom depths table by @FerriolCalvet in #385
• Integrity tests: Review normal test, add omega test and include documentation. by @migrau in #389
• Add the option to generate complementary subgenic regions by @FerriolCalvet in #396
• Add missing commit from omega flagging by @FerriolCalvet in #397
• Add mutdensity subgenic and fix bugs by @FerriolCalvet in #401
• Allow plotting selection metrics with partial data availability, for all species, and add shell injection protection by @Copilot in #393
• Add QCs for individual mutations by @FerriolCalvet in #408
• Fix warnings, clean namings and overall improvement by @FerriolCalvet in #414
• FEAT: Reapply mask to discarded mutations by @m-huertasp in #412
• Fix no filters usecase by @FerriolCalvet in #420
• added VAF vs VAF_AM histogram distribution plot by @efigb in #421
• REFACTOR: Improve dna2protein bottleneck by @m-huertasp in #422
• plot depths per group by @efigb in #424
• add decomposition of HDP with SigProfilerAssignment and minor fixes by @FerriolCalvet in #425
• 369 add ID signatures in sigprofilerassignment by @efigb in #429
• miscellaneous updates by @FerriolCalvet in #431
• Add profile smoothing and contamination check by @FerriolCalvet @koszulordie in #436
• TESTS: testing with small bladder set by @m-huertasp in #438
• add bbgregressions by @rblancomi @FerriolCalvet in #441
• Dev chunk optimization postprocessveppanel by @migrau in #390
• Add minor fixes by @FerriolCalvet in #443
• release v1.1.0 by @FerriolCalvet in #440

New Contributors

• @migrau made their first contribution in #389
• @efigb made their first contribution in #421

Full Changelog: v1.0.1...v1.1.0