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Issues list

Choose configuration library process + tools
#22 opened Jul 8, 2020 by hammer updated Jul 9, 2020
3
Replace LinearRegressionResult with Dataset enhancement New feature or request
#63 opened Jul 23, 2020 by eric-czech updated Jul 24, 2020
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 updated Jul 28, 2020
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 updated Aug 3, 2020
3
Add docstring linter documentation Improvements or additions to documentation process + tools
#70 opened Jul 28, 2020 by eric-czech updated Aug 4, 2020
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 updated Aug 5, 2020
5
Improve memory usage of indexes in display_genotypes
#97 opened Aug 7, 2020 by tomwhite updated Aug 7, 2020
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 updated Aug 10, 2020
18
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 updated Aug 20, 2020
@jeromekelleher
25
Add SE to GWAS linear regression results core operations Issues related to domain-specific functionality such as LD pruning, PCA, association testing, etc.
#220 opened Aug 31, 2020 by eric-czech updated Sep 1, 2020
Recommend using branches in developer's fork documentation Improvements or additions to documentation process + tools
#129 opened Aug 20, 2020 by jeromekelleher updated Sep 3, 2020
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 updated Sep 3, 2020
2
Point to public datasets in our documentation documentation Improvements or additions to documentation
#233 opened Sep 3, 2020 by hammer updated Sep 3, 2020
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 updated Sep 4, 2020
4
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 updated Sep 16, 2020
2
Alignment with numpy dispatch protocols? dispatching Issues related to how we send method calls to different backends
#273 opened Sep 23, 2020 by jeromekelleher updated Sep 24, 2020
Add count_call_alternate_alleles function core operations Issues related to domain-specific functionality such as LD pruning, PCA, association testing, etc.
#282 opened Sep 25, 2020 by eric-czech updated Oct 1, 2020
6 tasks
3
Investigate jupyter-sphinx and potentially replace ipython-directive in docs documentation Improvements or additions to documentation
#287 opened Sep 29, 2020 by eric-czech updated Oct 1, 2020
2
Take missing calls into account in popgen stats
#290 opened Oct 1, 2020 by tomwhite updated Oct 1, 2020
Improve warnings usage in docs examples documentation Improvements or additions to documentation
#288 opened Sep 30, 2020 by eric-czech updated Oct 1, 2020
Link variables to methods (and back) documentation Improvements or additions to documentation process + tools
#293 opened Oct 1, 2020 by ravwojdyla updated Oct 1, 2020
Add rsid to bgen reader result IO Issues related to reading and writing common third-party file formats
#318 opened Oct 8, 2020 by eric-czech updated Oct 8, 2020
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 updated Oct 12, 2020
3
Document conventions that fall outside of code formatting documentation Improvements or additions to documentation
#325 opened Oct 14, 2020 by eric-czech updated Oct 14, 2020
Allow temporary directory used in bgen rechunking to be remote IO Issues related to reading and writing common third-party file formats
#317 opened Oct 8, 2020 by eric-czech updated Oct 15, 2020
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