Releases: malariagen/malariagen-data-python
Releases · malariagen/malariagen-data-python
v7.13.0
v7.12.0
v7.11.0
What's Changed
- Anopheles refactor part 7 - AIM genotype data by @alimanfoo in #405
- Adding XPEHH by @jonbrenas in #394
New Contributors
- @jonbrenas made their first contribution in #394
Full Changelog: v7.10.0...v7.11.0
v7.10.0
What's Changed
- Use webgl for bokeh genome plots by @alimanfoo in #406
- Relax ipyleaflet pinning by @alimanfoo in #408
Full Changelog: v7.9.0...v7.10.0
v7.9.0
What's Changed
- Anopheles refactor part 6 - haplotype data by @alimanfoo in #401
- Fix for API breakage in numpydoc_decorator by @alimanfoo in #403
Full Changelog: v7.8.0...v7.9.0
v7.8.0
What's Changed
- Add Python 3.11 support by @alimanfoo in #397
- Work around slow pomegranate install by @alimanfoo in #398
- Refactor Anopheles tests on genome sequence, genome features and sample metadata by @alimanfoo in #399
- Upgrade bokeh to 3.1 by @alimanfoo in #400
Full Changelog: v7.7.0...v7.8.0
v7.7.0
Please note that this release includes stricter type checking of parameters passed into functions in the public API. If you experience TypeError exceptions and are unclear about the cause, please go ahead and raise an issue.
What's Changed
- Anopheles refactor part 5 - AnophelesSnpData by @alimanfoo in #393
Full Changelog: v7.6.0...v7.7.0
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
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