:seedling: Base Classes and Functions for Phylogenetic Tree Input and Output
active 2023-08-17 → 2026-04-30 (UTC)
Activity over time
Daily event counts in the loaded window
Line chart, 988 days from 2023-08-17 to 2026-04-30. Pushes: 21 total, peak 4 in a day. Pull requests: 16 total, peak 3 in a day. Issues: 13 total, peak 1 in a day. Comments: 35 total, peak 2 in a day. Stars: 14 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 |
|---|---|---|---|---|
| GuangchuangYu | 33 | 21 | 7 | 4 |
| brj1 | 8 | 0 | 3 | 5 |
| Fan-iX | 5 | 0 | 0 | 3 |
| SimonGreenhill | 5 | 0 | 3 | 2 |
| xiangpin | 4 | 0 | 2 | 2 |
| jayoung | 3 | 0 | 0 | 2 |
| dansmith01 | 3 | 0 | 0 | 3 |
| NPSDC | 2 | 0 | 0 | 0 |
| sihellem | 2 | 0 | 0 | 1 |
| SuperMutou | 2 | 0 | 0 | 1 |
| Sudaraka88 | 1 | 0 | 0 | 1 |
| Azurelan35 | 1 | 0 | 0 | 1 |
| gunjanpandey | 1 | 0 | 0 | 0 |
| kashishky | 1 | 0 | 0 | 1 |
| LPDagallier | 1 | 0 | 0 | 0 |
| BaylorSci | 1 | 0 | 0 | 1 |
| lfreitasl | 1 | 0 | 0 | 0 |
| IdoBar | 1 | 0 | 0 | 1 |
| wildspike | 1 | 0 | 0 | 1 |
| yiyian-Lee | 1 | 0 | 0 | 1 |
Recent activity
Latest issues, pull requests and releases
- Issue#135SuperMutou2026-01-30 02:24Error in get(x, envir = ns, inherits = FALSE) : object 'random_ref' not found
- Issue comment#135SuperMutou2026-01-30 02:24Error in get(x, envir = ns, inherits = FALSE) : object 'random_ref' not found
- Issue comment#126BaylorSci2025-09-18 22:15read.nextstrain.json fails on divergence trees
- Issue comment#133brj12025-08-18 19:49read.beast is not propagating the threading argument
- Issue comment#132Fan-iX2025-03-25 08:31`read.mega` / `read.beast` returns incorrect tip node data when reading nexus file with non-consecutive translation table keys
- Issue comment#132Fan-iX2025-03-24 04:53`read.mega` / `read.beast` returns incorrect tip node data when reading nexus file with non-consecutive translation table keys
- Issue comment#132brj12025-03-24 00:06`read.mega` / `read.beast` returns incorrect tip node data when reading nexus file with non-consecutive translation table keys
- Issue comment#132Fan-iX2025-03-23 09:44`read.mega` / `read.beast` returns incorrect tip node data when reading nexus file with non-consecutive translation table keys
- Issue#132Fan-iX2025-03-23 09:43`read.mega` / `read.beast` returns incorrect tip node data when reading nexus file with non-consecutive translation table keys
- Issue comment#131brj12025-02-18 21:06write.beast function is returning a tree with wrong annotation
- Issue comment#130brj12025-02-18 21:05noticed typo that suppressed multithreading
- Issue#131lfreitasl2025-02-18 15:42write.beast function is returning a tree with wrong annotation
- Issue comment#124IdoBar2025-01-31 02:34phyloXML and missing branch lengths
- Pull request#130brj12025-01-09 23:39
- Issue comment#120permia2024-12-02 08:59root function loses tip.label and node.label
- Issue#129mmokrejs2024-11-28 14:49Missing dependency on fs
- Issue comment#128GuangchuangYu2024-10-27 10:49Speed up read.beast and multithreading and progress logging
- Pull request#128GuangchuangYu2024-10-27 10:48
- Issue#125NPSDC2024-10-25 19:27tree_subset function no longer exists in the recent release of treeio
- Pull request#128brj12024-10-09 21:41
- Issue comment#125xiangpin2024-08-16 07:20tree_subset function no longer exists in the recent release of treeio
- Issue comment#125nearinj2024-08-15 21:05tree_subset function no longer exists in the recent release of treeio
- Issue#125NPSDC2024-05-09 06:45tree_subset function no longer exists in the recent release of treeio
- Issue comment#39GuangchuangYu2024-04-08 04:27Issue with function write.beast: not writing multiple BEAST trees
- Issue comment#113GuangchuangYu2024-04-08 04:15added support for multiple trees / writing phylo objects in write.beast
Totals cover only the window loaded into ClickHouse and count events, not GitHub's lifetime totals — 14 stars here means stars gained during the window, not the repo's star count.