v7.0.0

Highlights

• Adds H1X statistics for detecting shared selective sweeps, via Ag3.h1x_gwss() and Ag3.plot_h1x_gwss() functions.
• Adds Ag3.plot_haplotype_clustering() to visualise hierarchical clustering of haplotypes from a given genome region.
• Adds Ag3.plot_haplotype_network() to visualise a median-joining network of haplotypes from a given genome region.
• Adds the Pv4 and Pf7 classes for accessing data in the Plasmodium releases.
• Add Pv4.sample_metadata() and Pf7.sample_metadata() functions for accessing metadata.
• Add Pv4.variant_calls() and Pf7.variant_calls() functions for accessing variant calls.
• Add Pv4.genome_features() and Pf7.genome_features() functions for accessing the genome feature annotations.
• Add Pv4.genome_sequence() and Pf7.genome_sequence() functions for accessing the reference genome sequence.

What's Changed

• Implement H1X statistic for detecting shared selective sweeps by @alimanfoo in #283
• Implement interactive haplotype cluster plot by @sanjaynagi in #285
• Haplotype median-joining networks implementation by @alimanfoo in #287
• Af1.0 by @leehart in #289
• v7.0.0 release prep by @leehart in #292

New Contributors

• @sanjaynagi made their first contribution in #285

Full Changelog: v6.1.1...v7.0.0