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malariagen
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malariagen-data-python
Analyse MalariaGEN data from Python
https://malariagen.github.io/malariagen-data-python/latest/
MIT License
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Migrate to ruff
#485
alimanfoo
closed
8 months ago
0
Migrate to pydantic validate_call() for public API parameter type validation
#484
alimanfoo
opened
8 months ago
0
Refactor Anopheles IGV
#483
alimanfoo
closed
8 months ago
3
Add __init__() to API docs
#482
alimanfoo
opened
8 months ago
0
Anopheles refactor PCA functions
#481
alimanfoo
closed
8 months ago
2
Misc bug fixes
#480
alimanfoo
closed
8 months ago
3
Gaps in progress while computing biallelic SNP calls
#479
alimanfoo
closed
8 months ago
0
TypeError: plot_pca_coords() should accept dict for category_orders param
#478
alimanfoo
closed
8 months ago
0
plot_pca_coords() and plot_pca_coords_3d() should copy the input data before modifying
#477
alimanfoo
closed
8 months ago
0
TypeError: plot_pca_coords() does not accept dict for color param
#476
alimanfoo
closed
8 months ago
0
Reduce plotly legend trace gaps
#475
alimanfoo
closed
8 months ago
0
Xarray use Dataset.sizes rather than Dataset.dims
#474
alimanfoo
closed
8 months ago
0
Plot samples as scatter on a map
#473
alimanfoo
opened
8 months ago
1
Use xarray datasets for more return values
#472
alimanfoo
opened
8 months ago
0
Standardise biallelic diplotypes and handling of missing calls
#471
alimanfoo
opened
8 months ago
0
Biallelic pairwise distances and neighbour joining trees
#470
alimanfoo
closed
8 months ago
4
Simplify memory caching
#469
alimanfoo
opened
8 months ago
0
Biallelic SNP calls and diplotypes
#468
alimanfoo
closed
8 months ago
3
Remove dependency on jupyter-dash
#467
alimanfoo
closed
8 months ago
3
Slow performance saving results to cache
#466
alimanfoo
closed
8 months ago
0
Improve performance of dendrogram plotting and saving results to the cache
#465
alimanfoo
closed
8 months ago
3
Improve performance applying site filters to SNP calls
#464
alimanfoo
closed
8 months ago
2
Slow performance calling snp_calls() with site_mask parameter
#463
alimanfoo
closed
8 months ago
0
Add some spinners; tweak progress
#462
alimanfoo
closed
8 months ago
2
JupyterDash is deprecated, use Dash instead
#461
alimanfoo
closed
8 months ago
0
Consider adding GPU implementation of haplotype pairwise distance
#460
alimanfoo
opened
9 months ago
0
Tighten up release discovery
#459
leehart
opened
9 months ago
1
Chord diagram to visualise haplotype sharing
#458
alimanfoo
opened
9 months ago
1
Arc diagram to visualise haplotype sharing between cohorts
#457
alimanfoo
opened
9 months ago
1
Improve performance of plotly dendrogram implementation
#456
alimanfoo
closed
8 months ago
1
Do not leave tqdm progress bars
#455
alimanfoo
closed
8 months ago
1
Add spinners for long-running computations where we can't show progress
#454
alimanfoo
closed
8 months ago
2
Pass through render_mode when plotting a dendrogram
#453
alimanfoo
closed
9 months ago
2
Update switcher.json
#452
leehart
closed
8 months ago
1
Add render_mode parameter for plotly plotting functions
#451
alimanfoo
opened
9 months ago
0
Improve performance of haplotype clustering
#450
alimanfoo
closed
9 months ago
7
Speed up plot_haplotype_clustering()
#449
alimanfoo
closed
9 months ago
0
Biallelic SNP calls
#448
alimanfoo
closed
8 months ago
2
Update switcher.json
#447
leehart
closed
9 months ago
1
Guard against free base maps going out of service
#446
leehart
opened
9 months ago
0
Remove Stamen basemaps
#445
leehart
closed
9 months ago
4
Review API docs & refactor gene CNV frequencies functions
#444
alimanfoo
closed
9 months ago
2
KeyError: 'Stamen'
#443
alimanfoo
closed
9 months ago
6
Review lists of functions to included in the API documentation
#442
leehart
closed
9 months ago
1
Add option to use cohorts as colour or symbol in plot_haplotype_clustering
#441
jonbrenas
closed
9 months ago
6
Publish to PyPI failed for v7.14.0
#440
leehart
closed
9 months ago
1
Update switcher.json
#439
leehart
closed
9 months ago
2
pytest error
#438
jonbrenas
closed
10 months ago
3
Enabling the use of user-defined cohorts in more analysis
#437
jonbrenas
closed
8 months ago
1
Access cohort group data
#436
ahernank
closed
5 months ago
4
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