Skip to content

Issues: tskit-dev/tskit

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

282 Open 929 Closed
282 Open 929 Closed
Author
Filter by author
Loading
Label
Filter by label
Loading
Use alt + click/return to exclude labels
or ⇧ + click/return for logical OR
Projects
Filter by project
Loading
Milestones
Filter by milestone
Loading
Assignee
Filter by who’s assigned
Sort
Sort by
Newest Oldest Most commented Least commented Recently updated Least recently updated Best match
Most reactions
👍 👎 😄 🎉 😕 ❤️ 🚀 👀

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
ProTip! Updated in the last three days: updated:>2024-12-21.