v7.6.0

What's Changed

• Anopheles refactor part 4 - AnophelesSampleMetadata by @alimanfoo in #386
• Faster xarray concatenation by @alimanfoo in #395

Full Changelog: v7.5.0...v7.6.0

v7.5.0

What's Changed

• Drop support for Python 3.7 by @alimanfoo in #377
• Add min and max cohort size options to haplotypes, and add support in h12, h1x and fst functions by @sanjaynagi in #379
• Anopheles refactor part 1 - AnophelesBase by @alimanfoo in #380
• Anopheles refactor part 2 - AnophelesGenomeSequenceData by @alimanfoo in #381
• Anopheles refactor part 3 - AnophelesGenomeFeaturesData by @alimanfoo in #382
• Move _prep_sample_sets_param by @alimanfoo in #383
• Add quarter cohorts in read_cohort_metadata() exceptions by @ahernank in #385

New Contributors

• @ahernank made their first contribution in #385

Full Changelog: v7.4.0...v7.5.0

v7.4.0

What's Changed

• Ag3.genome_sequence() - add support for joined arms by @alimanfoo in #346
• ag3.genome_features() - add support for joined arms by @sanjaynagi in #347
• Add quarter derived from month to sample metadata. Add tests. by @leehart in #349
• Ag3 snp_genotypes(), snp_sites(), snp_variants(), snp_calls() - support for joined arms by @sanjaynagi in #352
• Add years, sample_sets, contributors to plot_samples_interactive_map marker titles by @leehart in #356
• ag3.haplotypes() - add support for joined arms by @sanjaynagi in #355
• plot_haplotype_clustering() fix - append extra metadata to hover data if specified by @sanjaynagi in #354
• Add Af1 site filters track for view_alignments() by @leehart in #357
• implement iHS GWSS by @sanjaynagi in #360
• Raise error when _snp_df() transcript is not found by @leehart in #364
• Support basemap str for plot_samples_interactive_map by @leehart in #372
• Implement G123 gwss method by @sanjaynagi in #369
• Type annotations and numpydoc_decorator applied to AnophelesDataResource by @alimanfoo in #353

Full Changelog: v7.3.1...v7.4.0

v7.3.1

What's Changed

• Fix bug with multiple regions in PCA and snp_allele_counts by @alimanfoo in #338

Full Changelog: v7.3.0...v7.3.1

v7.3.0

What's Changed

• Add extra sample metadata by @alimanfoo in #327
• Migrate release notes to github by @alimanfoo in #328
• Pin bokeh below 3.0 by @alimanfoo in #329
• Docstrings for Anopheles extra metadata methods by @alimanfoo in #330
• Refactor haplotypes functions to support Af1 by @leehart in #331

Full Changelog: v7.2.0...v7.3.0

v7.2.0

What's Changed

• Add cohort_size param to plot_snps() by @alimanfoo in #312
• Try to fix CI hanging on running notebooks by @alimanfoo in #314
• Fix param that should be optional by @alimanfoo in #311
• Add support for cohorts metadata in Af1 by @leehart in #318
• Ensure xarray has zarr backend by @alimanfoo in #322
• Bokeh fixes 2023-01-27 by @alimanfoo in #324

Full Changelog: v7.1.3...v7.2.0

v7.1.3

What's Changed

• Auto versionining and release by @alimanfoo in #309

Full Changelog: v7.1.2...v7.1.3

v7.1.2

What's Changed

• Fix Af1 genome features by @alimanfoo in #307

Full Changelog: v7.1.1...v7.1.2

v7.1.1

Full Changelog: v7.1.0...v7.1.1

v7.1.0

Highlights

• Adds Ag3.fst_gwss() and Ag3.plot_fst_gwss() functions for calculating and plotting Fst across a contig.

What's Changed

• Implement plot_fst_gwss function by @sanjaynagi in #294
• Fix docstrings by @alimanfoo in #304

Full Changelog: v7.0.5...v7.1.0