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119 Open 278 Closed
119 Open 278 Closed
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Issues list

Display issue of code blocs in docs
#976 opened Nov 7, 2024 by tforest
Include timing information in provenance
#975 opened Oct 3, 2024 by benjeffery
Improve test coverage for batch matching
#972 opened Sep 6, 2024 by benjeffery Release 0.4.0
VariantData: do we want to be able to specify individuals_time on construction?
#968 opened Sep 5, 2024 by hyanwong
2
UserWarning: The value of the smallest subnormal for <class 'numpy.float64'> type is zero.
#957 opened Aug 30, 2024 by hyanwong
Plot "edge-node time consistency"
#953 opened Aug 22, 2024 by hyanwong
Extra sample nodes being created from .vcz file when ploidies are uneven
#952 opened Aug 20, 2024 by hyanwong
10
VariantData sequence_length not being taken from zarr contig_length field
#949 opened Aug 14, 2024 by hyanwong
1
7
Investigate AFS bias due to polytomies
#933 opened Jun 11, 2024 by hyanwong
3
Bring sample batch matching in line with ancestor matching
#932 opened Jun 11, 2024 by benjeffery
Check all alleles at a site are unique before inference bug
#927 opened Jun 6, 2024 by hyanwong Release 0.4.0
1
6
Add dependency on tsdate enhancement
#926 opened Jun 3, 2024 by jeromekelleher
3
How to save an SgkitSampleData instance, e.g. for running the CLI
#925 opened May 24, 2024 by hyanwong
4
Class method to create simple VariantData files for demos
#924 opened May 23, 2024 by hyanwong Release 0.4.0
2
Batch job ancestor matching.
#921 opened May 22, 2024 by benjeffery
3
Reinstate 3.11, 3.12 testing after sgkit fix.
#920 opened May 15, 2024 by benjeffery Release 0.3.1
1
Pin to zarr < 3
#919 opened May 15, 2024 by jeromekelleher Release 0.4.0
Identifying PC nodes / edges added during match_samples
#916 opened May 9, 2024 by hyanwong
3
Low density regions and splitting enhancement
#913 opened Apr 15, 2024 by benjeffery
2
Improve ancestor building by using more information
#911 opened Mar 21, 2024 by hyanwong
Investigate why sample nodes attach to deep roots / ultimate ancestor
#903 opened Feb 13, 2024 by hyanwong
20
Allow names of sample and variant maskes to be specified.
#898 opened Feb 5, 2024 by benjeffery
1
Sample masking from sgkit dataset
#895 opened Jan 26, 2024 by benjeffery
1
Why not append None to all reported SampleData allele lists?
#894 opened Jan 24, 2024 by hyanwong
Corner case: cannot encode a SNP next to an indel in standard VCF encoding
#893 opened Jan 23, 2024 by hyanwong
1
ProTip! no:milestone will show everything without a milestone.