v13.0.1

What's Changed

• Handle missing CNV DRCs in similar way to missing CNV HMM by @leehart in #599

Full Changelog: v13.0.0...v13.0.1

v13.0.0

Release Notes

Python 3.9 no longer supported

Please note that Python 3.9 is no longer supported from this release.

What's Changed

• Drop support for Python 3.9, add support for numpy 2.x by @alimanfoo in #590
• Update GCS bucket to use single-region as default by @ahernank in #593

Full Changelog: v12.0.1...v13.0.0

v12.0.1

What's Changed

• Pin dependencies to resolve installation problems by @ahernank in #587
• Update switcher.json by @leehart in #581

Full Changelog: v12.0.0...v12.0.1

v12.0.0

What's Changed

• Anopheles diplotype clustering - fix n_snps in title by @sanjaynagi in #561
• Add defaults for min_minor_ac, max_missing_an by @leehart in #569
• Update switcher.json by @leehart in #574
• Add terms-of-use info to sample_metadata() by @leehart in #560
• Fix and improve plotting pairwise average fst by @alimanfoo in #579
• Add clip_min parameter for Fst GWSS analyses by @alimanfoo in #580
• Pandas FutureWarning: Setting an item of incompatible dtype is deprecated by @jonbrenas in #535
• Skip sample sets missing CNV HMM by @leehart in #575

Full Changelog: v11.0.0...v12.0.0

v11.0.0

What's Changed

• Option to annotate upper-right corner of Fst plots with Z scores. by @jonbrenas in #538

Full Changelog: v10.2.0...v11.0.0

v10.2.0

What's Changed

• Add sequence QC metadata to sample_metadata() by @leehart in #549

Full Changelog: v10.1.0...v10.2.0

v10.1.0

What's Changed

• Advanced diplotype clustering by @sanjaynagi in #537
• Advanced diplotype clustering - follow-up by @alimanfoo in #550

Full Changelog: v10.0.0...v10.1.0

v10.0.0

What's Changed

• Pandas FutureWarning: 'A' is deprecated and will be removed in a future version, please use 'Y' instead by @jonbrenas in #529
• Pandas FutureWarning: ChainedAssignmentError: behaviour will change in pandas 3.0 by @jonbrenas in #533
• Bokeh BokehDeprecationWarning: 'circle() method with size value' was deprecated in Bokeh 3.4.0 and will be removed, use 'scatter(size=...) instead' by @jonbrenas in #534
• Update poetry lock file by @alimanfoo in #527
• Add sample_query argument for cnv_discordant_read_calls function by @jonbrenas in #528
• Add automatic selection of regional GCS storage by @alimanfoo in #523
• Updated parasite test buckets from staging to release by @nw20 in #541
• Ensure a site mask is used by default for Anopheles popgen functions by @alimanfoo in #546

New Contributors

• @nw20 made their first contribution in #541

Full Changelog: v9.0.0...v10.0.0

v9.0.1

Release to activate Zenodo integration. No code changes.

Full Changelog: v9.0.0...v9.0.1

v9.0.0

What's Changed

• Authenticate the user if accessing GCS by @alimanfoo in #513
• Add support for Python 3.12, drop support for Python 3.8 by @alimanfoo in #514
• Detect permission error by @alimanfoo in #517
• Update support mailing address by @ahernank in #520

Full Changelog: v8.8.0...v9.0.0