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tscompare

Utilities for comparing tree sequences

https://github.com/tskit-dev/tscompare

Science Score: 44.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ✓
    CITATION.cff file
    Found CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ✓
    .zenodo.json file
    Found .zenodo.json file
  • ○
    DOI references
  • ○
    Academic publication links
  • ○
    Academic email domains
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (0.9%) to scientific vocabulary
Last synced: 6 months ago · JSON representation ·

Repository

Utilities for comparing tree sequences

Basic Info
  • Host: GitHub
  • Owner: tskit-dev
  • License: mit
  • Language: Python
  • Default Branch: main
  • Size: 36.1 KB
Statistics
  • Stars: 2
  • Watchers: 4
  • Forks: 3
  • Open Issues: 4
  • Releases: 0
Created almost 7 years ago · Last pushed 6 months ago
Metadata Files
Readme Changelog License Citation

README.md

tscompare

Utilities for comparing tree sequences

Under construction, 1 December 2024: this code will be available very soon.

Owner

  • Name: Tskit developers
  • Login: tskit-dev
  • Kind: organization
  • Email: admin@tskit.dev

Software for the creation and analysis of tree-sequences.

Citation (CITATION.md) 

(sec_citation)=

# Citing tscompare

If you use `tscompare` in your work, please cite the
[2024 bioRxiv paper](<https://www.biorxiv.org/content/10.1101/2024.11.30.626138>):

>  Halley Fritze, Nathaniel Pope, Jerome Kelleher, and Peter Ralph (2024),
> *A forest is more than its trees: haplotypes and ARGs*,
> bioRxiv 2024.11.30.626138. https://www.biorxiv.org/content/10.1101/2024.11.30.626138

GitHub Events

Total
  • Issues event: 6
  • Delete event: 2
  • Member event: 1
  • Issue comment event: 46
  • Push event: 12
  • Pull request review comment event: 41
  • Pull request review event: 22
  • Pull request event: 24
  • Fork event: 3
  • Create event: 1
Last Year
  • Issues event: 6
  • Delete event: 2
  • Member event: 1
  • Issue comment event: 46
  • Push event: 12
  • Pull request review comment event: 41
  • Pull request review event: 22
  • Pull request event: 24
  • Fork event: 3
  • Create event: 1

Issues and Pull Requests

Last synced: 6 months ago

All Time
  • Total issues: 3
  • Total pull requests: 14
  • Average time to close issues: about 16 hours
  • Average time to close pull requests: 3 days
  • Total issue authors: 2
  • Total pull request authors: 3
  • Average comments per issue: 0.33
  • Average comments per pull request: 0.21
  • Merged pull requests: 11
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 3
  • Pull requests: 14
  • Average time to close issues: about 16 hours
  • Average time to close pull requests: 3 days
  • Issue authors: 2
  • Pull request authors: 3
  • Average comments per issue: 0.33
  • Average comments per pull request: 0.21
  • Merged pull requests: 11
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • petrelharp (2)
  • hyanwong (1)
Pull Request Authors
  • benjeffery (8)
  • petrelharp (5)
  • hfr1tz3 (1)
Top Labels
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Dependencies

.github/workflows/docs.yml actions
  • actions/checkout v4 composite
  • actions/setup-python v5.3.0 composite
  • styfle/cancel-workflow-action 0.12.1 composite
.github/workflows/tests.yml actions
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  • actions/checkout v4.2.2 composite
  • actions/setup-python v5.3.0 composite
  • conda-incubator/setup-miniconda v3.1.0 composite
  • pre-commit/action v3.0.1 composite
  • styfle/cancel-workflow-action 0.12.1 composite
pyproject.toml pypi
requirements/CI-docs-pip/requirements.txt pypi
  • breathe ==4.35.0
  • jupyter-book ==1.0.0
  • msprime ==1.3.2
  • scipy ==1.14.1
  • sphinx-argparse ==0.4.0
  • sphinx-autodoc-typehints ==2.2.2
  • sphinx-book-theme *
  • sphinx-issues ==4.1.0
  • svgwrite ==1.4.3
  • tsinfer ==0.3.3
  • tskit ==0.6.0
requirements/CI-tests-conda/requirements.txt pypi
  • msprime ==1.3.2 test
  • scipy ==1.14.1 test
requirements/CI-tests-pip/requirements.txt pypi
  • numpy ==2.2.0 test
  • pytest ==8.2.2 test
  • pytest-cov ==5.0.0 test
  • pytest-xdist ==3.6.1 test
  • tskit ==0.6.0 test
requirements/development.txt pypi
  • msprime >=1.0.0 development
  • numpy * development
  • pytest * development
  • pytest-cov * development
  • pytest-xdist * development
  • scipy * development
  • tskit * development