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282 Open 929 Closed
282 Open 929 Closed
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Issues list

Map mutations using Sankoff's algorithm
#3071 opened Dec 11, 2024 by hyanwong
allow a different set of nodes for the "right hand side" on genetic_relatedness_vector
#3062 opened Nov 21, 2024 by petrelharp
genetic_relatedness thinks it needs 2 samples sets but is valid with only one
#3055 opened Nov 14, 2024 by petrelharp
Document that inverting pair_coalescence_rate should account for factor of 2 to match diploid Ne
#3054 opened Nov 14, 2024 by hyanwong
ts.pair_coalescence_rates can give large or infinite rates bug Something isn't working
#3048 opened Nov 6, 2024 by hyanwong
@nspope
2
Avoid unnecessary upwards traversals in tsk_pair_coalescence_stat enhancement New feature or request
#3047 opened Nov 5, 2024 by nspope
@nspope
Python 3.13
#3030 opened Oct 16, 2024 by benjeffery
CI time
#3026 opened Oct 16, 2024 by benjeffery
9
add a docs section discussing operations with the relatedness matrix
#3020 opened Oct 15, 2024 by petrelharp
allow mode="mutation" for genetic_relatedness_vector (and make this default?)
#2997 opened Sep 24, 2024 by petrelharp
provide feedback on max_iter for extend_haplotypes
#2988 opened Sep 17, 2024 by petrelharp
5
"mutation" mode for statistics
#2982 opened Sep 6, 2024 by petrelharp
1
clarify that genetic_relatedness includes self comparisons
#2978 opened Aug 28, 2024 by petrelharp
1
Drop "benchmark" CI job? Infrastructure and tools Development infrastructure and tools
#2965 opened Jun 20, 2024 by jeromekelleher
Split large numbers in html/cli print out.
#2951 opened May 20, 2024 by benjeffery
Codecov upload issues
#2931 opened Apr 17, 2024 by benjeffery
1
Bug assertion in ts.allele_frequency_spectrum bug Something isn't working
#2923 opened Apr 11, 2024 by nspope
8
TreeSequence.f2 is not symmetric with multiallelic sites
#2919 opened Apr 5, 2024 by BenjaminPeter
3
Add node_is_sample array enhancement New feature or request Python API Issue is about the Python API
#2917 opened Apr 4, 2024 by jeromekelleher
2
Use reusable workflows across repos? Infrastructure and tools Development infrastructure and tools
#2913 opened Mar 24, 2024 by jeromekelleher
2
AFS folding (polarised=False)
#2972 opened Mar 9, 2024 by sunyatin
6
Number of variable sites (not just num_sites)
#2899 opened Feb 7, 2024 by hyanwong
1
write_vcf should use the reference sequence for REF, if present
#2898 opened Feb 7, 2024 by hyanwong Python 0.6.1
Documentation for IBD segments documentation Documentation
#2897 opened Feb 1, 2024 by jeromekelleher
Add support for MRCA based IBD enhancement New feature or request
#2896 opened Feb 1, 2024 by jeromekelleher
@jeromekelleher
2
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