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Pull requests: malariagen/malariagen-data-python

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Pull requests list

Fix NumPy 2.x slicing incompatibility in CNV frequency analysis
#855 opened Feb 2, 2026 by adilraza99 Loading…
2
Fix pandas chained indexing to restore NumPy 2.x compatibility
#854 opened Feb 2, 2026 by adilraza99 Loading…
1
Fix CI ValueError on NumPy 2.x by avoiding VLENUTF8 string dtype in tests
#853 opened Feb 1, 2026 by adilraza99 Loading…
1
5
Fix NumPy version mismatch in CI test matrix
#852 opened Jan 30, 2026 by adilraza99 Loading…
Document error bars behavior in ag3.plot_frequencies_time_series
#851 opened Jan 30, 2026 by adilraza99 Loading…
1
1
Fix ValueErrors
#850 opened Jan 23, 2026 by leehart • Draft
Amend numpy-version for test matrix triage
#849 opened Jan 23, 2026 by leehart • Draft
@ahernank @jonbrenas
1
Update Bokeh triage
#846 opened Jan 16, 2026 by leehart • Draft
@ahernank @jonbrenas
7
Avoid segmentation fault errors during CI tests triage
#842 opened Jan 13, 2026 by leehart • Draft
@ahernank @jonbrenas
13
Fix phenotype data path construction and remove hardcoded release version
#818 opened Sep 7, 2025 by Aditya365x Loading…
add advanced haplotype clustering
#817 opened Sep 5, 2025 by sanjaynagi Loading…
2 tasks done
17
Feature/794 canonical transcript
#804 opened Jun 26, 2025 by mohamed-laarej Loading…
10
Add cohort downsampling support to PCA and update tests
#803 opened Jun 21, 2025 by DeepakSilaych Loading…
11
Partially fixes 798 by adding hashing support to roh_hmm function in anopheles.py
#799 opened Jun 18, 2025 by tristanpwdennis Loading…
3
Fix cnv_discordant_read_calls: raise ValueError when no data found
#781 opened May 20, 2025 by Jiya873 Loading…
7
Fix/fake sample count het
#779 opened May 19, 2025 by Jiya873 Loading…
4
Modernize NumPy Random Functions and Fix Mypy Errors for #756 - Shadow PR
#771 opened May 12, 2025 by jonbrenas Loading…
19
Modernize NumPy Random Functions and Fix Mypy Errors for #756
#760 opened Apr 15, 2025 by mohamed-laarej Loading…
1
4
Enhanced dendrogram with heatmap feature
#750 opened Apr 2, 2025 by rishabh240405 Loading…
13
WIP Admixture statistics functions
#735 opened Mar 17, 2025 by KellyLBennett • Draft
@KellyLBennett
4
Adding functionalities to compute and plot frequencies of inversions
#732 opened Mar 13, 2025 by jonbrenas • Draft
2
Add As1 triage
#714 opened Jan 24, 2025 by leehart • Draft
@ahernank @jonbrenas
2
Better defaults for chunks parameters
#704 opened Jan 8, 2025 by jonbrenas • Draft
4
Replace contig with region in GWSS functions triage
#691 opened Dec 6, 2024 by leehart • Draft
1
@ahernank @jonbrenas
32
ProTip! Updated in the last three days: updated:>2026-01-30.