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Pull requests: malariagen/malariagen-data-python

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Pull requests list

PCA 'max_cohort_size' doesn't work properly
#1339 opened Jul 16, 2026 by jonbrenas Collaborator Loading…
1
Add kinship coefficients
#1338 opened Jul 8, 2026 by tristanpwdennis Collaborator Loading…
remove pf9 functionality
#1335 opened Jun 29, 2026 by nw20 Collaborator Loading…
Unify contributing guides
#1331 opened Jun 20, 2026 by jwgarber Contributor Loading…
Admixture f3 and f4 statistics function.
#1330 opened Jun 10, 2026 by KellyLBennett Collaborator Loading…
@KellyLBennett
18
handle Mapping cohorts in pca
#1329 opened Jun 1, 2026 by 31puneet Contributor Loading…
1
1
Add pydantic Field constraints
#1319 opened Apr 22, 2026 by 31puneet Contributor Loading…
1
1
Add stacklevel 2
#1318 opened Apr 22, 2026 by 31puneet Contributor Loading…
1
Make the sex-linked contig configurable in CNV frequency analysis
#1314 opened Apr 18, 2026 by khushthecoder Contributor Loading…
5 of 6 tasks
1
5
Surface ipinfo.io location check failures (closes #1311)
#1312 opened Apr 18, 2026 by kunal-10-cloud Contributor Loading…
3 of 4 tasks
1
3
Extract plot_haplotype_network into AnophelesHapNetAnalysis mixin
#1310 opened Apr 18, 2026 by AswaniSahoo Contributor Loading…
1
Fix #1308: Remove dead dask.config.set() at module import time
#1309 opened Apr 17, 2026 by khushthecoder Contributor Loading…
5 of 6 tasks
1
1
fix: guard against empty data in plot_cnv_hmm_coverage_track
#1307 opened Apr 17, 2026 by suhr25 Contributor Loading…
7
fix: expand CI coverage to full malariagen_data package and update codecov action
#1302 opened Apr 15, 2026 by kunal-10-cloud Contributor Loading…
1 of 3 tasks
1
6
Add dataset summary
#1300 opened Apr 15, 2026 by Mo-3bkreem Loading…
Add PBS genome-wide scan
#1299 opened Apr 15, 2026 by 31puneet Contributor Loading…
1
2
fix: replace hardcoded GCS cache keys with monthly-rotating dynamic keys
#1297 opened Apr 14, 2026 by kunal-10-cloud Contributor Loading…
2 of 4 tasks
1
5
feat: add public cache_info() and clear_cache() API (fixes #1289)
#1295 opened Apr 14, 2026 by khushthecoder Contributor Loading…
10 tasks done
1
2
fix: expose cohort size parameters in diversity_stats
#1290 opened Apr 13, 2026 by adilraza99 Contributor Loading…
1
1
Fix #1283: Warn and handle missing FORMAT fields in snp_calls_to_vcf()
#1284 opened Apr 10, 2026 by Yashsingh045 Contributor Loading…
1
7
Compute and plot inversion frequencies
#1282 opened Apr 10, 2026 by 31puneet Contributor Loading…
1
11
refactor: migrate karyotype tag loading to GCS and add simulated tests
#1278 opened Apr 8, 2026 by adilraza99 Contributor Loading…
1
13
add DeprecationWarning to geneset() and snp_dataset()
#1274 opened Apr 3, 2026 by ZiadXI Contributor Loading…
feat: implement variant association analysis
#1272 opened Apr 3, 2026 by 31puneet Contributor • Draft
1
1
fix: suppress misleading KeyError chain in _locate_site_class`
#1270 opened Apr 2, 2026 by blankirigaya Contributor Loading…
1
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