Pairtree is a method for reconstructing cancer evolutionary history in individual patients, and analyzing intratumor genetic heterogeneity. Pairtree focuses on scaling to many more cancer samples and cancer cell subpopulations than other algorithms, and on producing concise and informative interactive characterizations of posterior uncertainty.
active 2023-08-15 → 2025-10-23 (UTC)
Activity over time
Daily event counts in the loaded window
Line chart, 801 days from 2023-08-15 to 2025-10-23. Pushes: 3 total, peak 2 in a day. Pull requests: 1 total, peak 1 in a day. Issues: 24 total, peak 3 in a day. Comments: 37 total, peak 4 in a day. Stars: 11 total, peak 1 in a day.
- Pushes
- Pull requests
- Issues
- Comments
- Stars
Stars, PRs, issues and forks are under-captured in the later part of this window. GH Archive progressively stopped capturing non-push events during 2026 — −95% or worse by the end of the window. Every series here except Pushes fades for that reason, so a decline above reflects the archive, not this repository. Pushes stay reliable throughout, so read them, and the contributor counts derived from them, as the real signal. Data health has the measurements.
Top contributors
Pushes, PRs, issues, reviews and comments — stars and forks excluded, so this is contribution rather than popularity
| Contributor | Contributions | Pushes | PRs | Comments |
|---|---|---|---|---|
| ethanumn | 29 | 3 | 0 | 18 |
| THT-sleepy | 9 | 0 | 0 | 3 |
| itigupta2429 | 8 | 0 | 0 | 3 |
| oghzzang | 7 | 0 | 0 | 6 |
| cathy-y | 3 | 0 | 0 | 2 |
| alexanderchang1 | 3 | 0 | 0 | 2 |
| dejonggr | 2 | 0 | 0 | 2 |
| sahuno | 2 | 0 | 0 | 1 |
| J-Moravec | 1 | 0 | 1 | 0 |
| ElizabethBorden | 1 | 0 | 0 | 0 |
Recent activity
Latest issues, pull requests and releases
- Pull request#8J-Moravec2025-01-13 20:14
- Issue#53itigupta24292024-10-25 19:05Get trunk and branch clusters
- Issue comment#53itigupta24292024-10-25 19:05Get trunk and branch clusters
- Issue#53itigupta24292024-10-23 17:04Get trunk and branch clusters
- Issue#51ethanumn2024-10-10 13:38Getting different tree solutions with different pairtree run.
- Issue#48ethanumn2024-09-15 09:01Manta VCFs
- Issue#52ethanumn2024-08-02 01:49Pairtree generating nonexistent variant IDs, leading to KeyError
- Issue comment#52ethanumn2024-08-02 01:03Pairtree generating nonexistent variant IDs, leading to KeyError
- Issue comment#52cathy-y2024-08-02 00:47Pairtree generating nonexistent variant IDs, leading to KeyError
- Issue comment#52ethanumn2024-08-02 00:27Pairtree generating nonexistent variant IDs, leading to KeyError
- Issue comment#52cathy-y2024-08-01 22:42Pairtree generating nonexistent variant IDs, leading to KeyError
- Issue#52cathy-y2024-08-01 22:18Pairtree generating nonexistent variant IDs, leading to KeyError
- Issue#12ethanumn2024-06-26 19:54Weird results: no branching, just series of clusters
- Issue comment#12dejonggr2024-06-25 17:04Weird results: no branching, just series of clusters
- Issue comment#51ethanumn2024-06-05 19:13Getting different tree solutions with different pairtree run.
- Issue comment#51itigupta24292024-05-24 02:50Getting different tree solutions with different pairtree run.
- Issue comment#51ethanumn2024-05-21 11:58Getting different tree solutions with different pairtree run.
- Issue#51itigupta24292024-05-17 19:59Getting different tree solutions with different pairtree run.
- Issue#46ethanumn2024-05-17 13:19Adding CN to VCF file
- Issue#40ethanumn2024-05-17 13:19pairtree requires older version of numpy
- Issue comment#12ethanumn2024-05-16 19:51Weird results: no branching, just series of clusters
- Issue#12ethanumn2024-05-16 19:51Weird results: no branching, just series of clusters
- Issue comment#12dejonggr2024-05-16 19:43Weird results: no branching, just series of clusters
- Issue comment#48alexanderchang12024-05-07 20:12Manta VCFs
- Issue comment#48ethanumn2024-05-04 13:45Manta VCFs
Totals cover only the window loaded into ClickHouse and count events, not GitHub's lifetime totals — 11 stars here means stars gained during the window, not the repo's star count.