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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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Adding detailed descriptions of the DataFrames and Datasets returned by the various functions
#662
jonbrenas
opened
5 hours ago
0
Moving things around: `cnv_frequencies` is treated differently from `snp_frequencies` and `hap_frequencies`, and `plot_frequencies_heatmap` is not in a good place
#661
jonbrenas
opened
8 hours ago
0
Missing CNV allele calls are reported as CNV present
#660
EricRLucas
opened
1 day ago
0
Add Pf8()
#659
eselimnl
opened
1 day ago
0
Pf8()
#658
eselimnl
opened
2 days ago
3
Add taxon and area params to plot_frequencies_time_series()
#657
leehart
opened
4 days ago
3
Slow import
#656
alimanfoo
opened
4 days ago
1
Gene CNV optimisation
#655
alimanfoo
closed
1 day ago
2
Performance of gene_cnv_frequencies() with multiple regions
#654
alimanfoo
closed
1 day ago
0
Add gene_labels and labels to plot_genes()
#653
leehart
opened
1 week ago
4
Karyotype frequencies
#652
alimanfoo
opened
1 week ago
0
Update cache names
#651
leehart
closed
1 week ago
0
Remove the transient Warning during pytests
#650
jonbrenas
closed
2 weeks ago
1
Sort gene annotations by contig and start coordinate in `genome_features()`
#649
sanjaynagi
closed
2 weeks ago
0
Bokeh genome plots flip direction of X axis
#648
alimanfoo
opened
4 weeks ago
1
Add support for dynamic neighbour-joining
#647
alimanfoo
closed
1 month ago
2
Dynamic neighbour-joining
#646
alimanfoo
closed
1 month ago
0
Add sample_query_options to more functions
#645
leehart
closed
2 weeks ago
3
Redefinition of gplt_params.figure
#644
jonbrenas
opened
1 month ago
0
Small simplification to progress monitoring within plot_njt
#643
alimanfoo
closed
1 month ago
1
Re-order API client releases
#642
ahernank
opened
1 month ago
1
Improve neighbour-joining tree performance
#641
alimanfoo
closed
1 month ago
1
Use optional env var for show_progress in Ag3, Af1
#640
leehart
closed
1 month ago
1
Add sample location scatter maps
#639
leehart
closed
1 month ago
4
Add cross_metadata to sample metadata section of Ag3 docs
#638
leehart
closed
1 month ago
0
Replace np.in1d with np.isin in g123.py
#637
leehart
closed
1 month ago
2
Add SNP browser
#636
leehart
opened
1 month ago
21
Add `sample_query_options` arg to functions without `sample_query` arg, e.g. h1x_gwss
#635
leehart
closed
2 weeks ago
1
Random error when performing tests
#634
jonbrenas
closed
1 month ago
0
Add toolbar_options to grumbling gridplots
#633
leehart
closed
1 month ago
2
Raise error if colab VM not in US
#632
alimanfoo
closed
1 month ago
0
Switch off site filters
#631
leehart
closed
1 month ago
5
Haplotype frequency analysis methods
#630
jonbrenas
opened
1 month ago
7
Better defaults for chunks parameters
#629
alimanfoo
opened
1 month ago
0
Add sample_query_options
#628
leehart
closed
1 month ago
0
Neighbour-joining tree performance
#627
alimanfoo
closed
1 month ago
4
Further work on scalability for large biallelic genotype data computations
#626
alimanfoo
closed
1 month ago
1
Fix center and zoom map parameters to allow int or float values
#625
leehart
closed
1 month ago
2
Set auto_pan False for marker popup in plot_frequencies_map_markers()
#624
leehart
closed
1 month ago
1
Improve performance when accessing biallelic SNP calls
#623
alimanfoo
closed
1 month ago
2
Handle chunks parameter given as a size in memory; improve default chunks
#622
alimanfoo
closed
2 months ago
1
Automatic chunking is causing some memory usage issues
#621
alimanfoo
closed
1 month ago
1
Colab location check is not working
#620
alimanfoo
closed
1 month ago
0
Random error when performing tests
#619
jonbrenas
closed
2 months ago
6
Random error when performing tests - empty range in randrange(3, 3)
#618
jonbrenas
closed
1 month ago
2
Support fractions for max_missing_an and min_minor_ac parameters when accessing biallelic SNPs
#617
alimanfoo
closed
2 months ago
1
Add parameters to the Anopheles pca function to allow better handling of outliers
#616
alimanfoo
closed
2 months ago
3
More options for automatic sizing of chunks
#615
alimanfoo
closed
2 months ago
2
Handle dask distributed progress
#614
alimanfoo
closed
2 months ago
1
Pass through chunks when computing biallelic SNP calls
#613
alimanfoo
closed
2 months ago
0
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