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Issues list

Run on Pyodide process + tools
#803 opened Jan 17, 2022 by tomwhite
1 🚀 2
Find some way to keep requirements.txt in sync with install_requires in setup.cfg process + tools
#89 opened Aug 3, 2020 by eric-czech
2
Genome region query API data representation Issues related to how data is represented: data types, data structures, indexes, access methods, etc
#25 opened Jul 8, 2020 by alimanfoo
15
Test IO on large scale data IO Issues related to reading and writing common third-party file formats performance
#48 opened Jul 16, 2020 by jeromekelleher
@jeromekelleher
25
Track and improve the performance of allele counting method core operations Issues related to domain-specific functionality such as LD pruning, PCA, association testing, etc. performance
#49 opened Jul 16, 2020 by eric-czech
7
VCF Zarr improvements IO Issues related to reading and writing common third-party file formats
#56 opened Jul 21, 2020 by tomwhite
2 of 4 tasks
2
Add invariant validation function core operations Issues related to domain-specific functionality such as LD pruning, PCA, association testing, etc.
#61 opened Jul 23, 2020 by tomwhite
3
Replace LinearRegressionResult with Dataset enhancement New feature or request
#63 opened Jul 23, 2020 by eric-czech
Add tskit as import format? enhancement New feature or request IO Issues related to reading and writing common third-party file formats question Further information is requested
#64 opened Jul 24, 2020 by jeromekelleher
9
Requirements for UKB GWAS core operations Issues related to domain-specific functionality such as LD pruning, PCA, association testing, etc.
#67 opened Jul 24, 2020 by eric-czech
8 of 11 tasks
9
Add benchmark suite performance process + tools
#68 opened Jul 27, 2020 by eric-czech
1 task
6
Add docstring linter documentation Improvements or additions to documentation process + tools
#70 opened Jul 28, 2020 by eric-czech
5
Create bitpacking filter for biallelic diploid datasets good first issue Good for newcomers IO Issues related to reading and writing common third-party file formats
#80 opened Jul 30, 2020 by eric-czech
5
Genotype call array to dosage core operations Issues related to domain-specific functionality such as LD pruning, PCA, association testing, etc. data representation Issues related to how data is represented: data types, data structures, indexes, access methods, etc
#21 opened Jul 8, 2020 by alimanfoo
18
Improve memory usage of indexes in display_genotypes
#97 opened Aug 7, 2020 by tomwhite
Add variant annotation functions core operations Issues related to domain-specific functionality such as LD pruning, PCA, association testing, etc.
#112 opened Aug 13, 2020 by eric-czech
4
Create and document committer protocol process + tools
#127 opened Aug 20, 2020 by hammer
@tomwhite
6
Recommend using branches in developer's fork documentation Improvements or additions to documentation process + tools
#129 opened Aug 20, 2020 by jeromekelleher
8
Encourage contributors to rebase feature branches to bring them up to date? documentation Improvements or additions to documentation process + tools
#140 opened Aug 24, 2020 by jeromekelleher
2
Add ChunkType to sgkit.typing
#213 opened Aug 27, 2020 by eric-czech
2
Run tests against NumPy 2 upstream Used when our build breaks due to upstream changes
#1234 opened Jun 24, 2024 by tomwhite
2
Requirements for population structure analysis core operations Issues related to domain-specific functionality such as LD pruning, PCA, association testing, etc.
#226 opened Sep 1, 2020 by jeromekelleher
3 of 4 tasks
1
Point to public datasets in our documentation documentation Improvements or additions to documentation
#233 opened Sep 3, 2020 by hammer
Add assert_array_shape calls to method code core operations Issues related to domain-specific functionality such as LD pruning, PCA, association testing, etc. good first issue Good for newcomers
#267 opened Sep 16, 2020 by tomwhite
3
Add get_allele_type function core operations Issues related to domain-specific functionality such as LD pruning, PCA, association testing, etc.
#84 opened Aug 3, 2020 by eric-czech
3
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