Algorithm for ultra-scale multiple sequence alignments (3M protein sequences in 5 minutes and 24 GB of RAM)
active 2023-08-25 → 2026-07-06 (UTC)
Activity over time
Daily event counts in the loaded window
Line chart, 1047 days from 2023-08-25 to 2026-07-06. Pushes: 7 total, peak 2 in a day. Pull requests: 7 total, peak 2 in a day. Issues: 20 total, peak 4 in a day. Comments: 23 total, peak 4 in a day. Stars: 83 total, peak 7 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 |
|---|---|---|---|---|
| agudys | 29 | 6 | 3 | 14 |
| uzbit | 3 | 0 | 1 | 2 |
| raufs | 3 | 0 | 0 | 1 |
| althonos | 3 | 0 | 1 | 0 |
| Thernn88 | 3 | 0 | 0 | 0 |
| nathanweeks | 3 | 0 | 0 | 1 |
| dependabot[bot] | 3 | 0 | 2 | 1 |
| sebschmi | 2 | 0 | 0 | 1 |
| PraljakReps | 2 | 0 | 0 | 0 |
| maovshao | 1 | 0 | 0 | 1 |
| pyspider | 1 | 0 | 0 | 0 |
| davidlougheed | 1 | 0 | 0 | 1 |
| fabgonzal | 1 | 0 | 0 | 0 |
| TerminatedGB | 1 | 0 | 0 | 1 |
Recent activity
Latest issues, pull requests and releases
- Issue comment#63agudys2026-03-16 22:36Segmentation fault on low `-medoid_threshold` parameter value
- Issue comment#57agudys2026-01-27 10:10Error when using NJ tree: incomplete tree and assertion failure in profile.cpp:248
- Issue#52Thernn882025-12-08 16:44[ERROR] Core dump when profile aligning.
- Issue#61althonos2025-12-03 16:49Segmentation fault on profile-profile alignment in refinement
- Issue comment#51agudys2025-11-21 07:57[Request] Align unaligned sequences to a profile
- Issue#57pyspider2025-09-08 01:30Error when using NJ tree: incomplete tree and assertion failure in profile.cpp:248
- Issue comment#55raufs2025-08-25 00:15Question about deterministic behavior expectations
- Issue#55raufs2025-08-25 00:15Question about deterministic behavior expectations
- Issue comment#55agudys2025-08-24 22:04Question about deterministic behavior expectations
- Issue#54raufs2025-08-06 01:42Alignment issue example on macOS-arm64 but not on linux server
- Issue comment#53sebschmi2025-04-16 06:12What is the protein alphabet used in FAMSA?
- Issue comment#53agudys2025-04-15 11:53What is the protein alphabet used in FAMSA?
- Issue comment#50uzbit2025-03-28 12:50Add clustal output format as an option
- Issue#53sebschmi2025-03-06 07:47What is the protein alphabet used in FAMSA?
- Issue#52Thernn882025-02-15 04:32[ERROR] Core dump when profile aligning.
- Issue#51Thernn882025-02-14 17:50[Request] Align unaligned sequences to a profile
- Issue comment#50agudys2025-01-16 12:31Add clustal output format as an option
- Issue comment#50uzbit2025-01-08 17:32Add clustal output format as an option
- Pull request#50uzbit2025-01-01 19:24
- Issue comment#43agudys2024-11-27 22:06Error at run time
- Issue comment#39TerminatedGB2024-11-26 03:03Reverse compliments
- Issue comment#45nathanweeks2024-09-20 22:00Git submodules for vendored libraries
- Issue#45nathanweeks2024-09-20 22:00Git submodules for vendored libraries
- Issue comment#45agudys2024-09-18 19:59Git submodules for vendored libraries
- Releaseagudys2024-09-18 10:14test
Totals cover only the window loaded into ClickHouse and count events, not GitHub's lifetime totals — 83 stars here means stars gained during the window, not the repo's star count.