[ISMB 2025] DNABERT_S: Learning Species-Aware DNA Embedding with Genome Foundation Models
active 2024-02-23 → 2026-01-08 (UTC)
Activity over time
Daily event counts in the loaded window
Line chart, 686 days from 2024-02-23 to 2026-01-08. Pushes: 2 total, peak 1 in a day. Pull requests: 2 total, peak 1 in a day. Issues: 28 total, peak 4 in a day. Comments: 26 total, peak 5 in a day. Stars: 52 total, peak 3 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 |
|---|---|---|---|---|
| Zhihan1996 | 32 | 1 | 1 | 17 |
| HelloWorldLTY | 5 | 0 | 1 | 1 |
| Wesady | 4 | 0 | 0 | 1 |
| amssljc | 3 | 0 | 0 | 2 |
| Andyargueasae | 3 | 0 | 0 | 2 |
| rnowling | 2 | 0 | 0 | 1 |
| jinz2014 | 2 | 0 | 0 | 0 |
| WeiminWu2000 | 2 | 1 | 0 | 1 |
| jolespin | 1 | 0 | 0 | 0 |
| cerebis | 1 | 0 | 0 | 0 |
| goldsteinc | 1 | 0 | 0 | 1 |
| liuyun313 | 1 | 0 | 0 | 0 |
| JSchreijer | 1 | 0 | 0 | 0 |
Recent activity
Latest issues, pull requests and releases
- Issue comment#29goldsteinc2025-06-09 13:23Speed Performance
- Issue comment#26Zhihan19962025-04-09 04:50Language modelling head weights
- Issue#26Zhihan19962025-04-09 04:50Language modelling head weights
- Issue comment#28Zhihan19962025-04-09 04:48Have you tried LoRA for training DNABERT_S?
- Issue#28Zhihan19962025-04-09 04:48Have you tried LoRA for training DNABERT_S?
- Issue#27jolespin2025-03-08 21:47[Question] How to reconstruct sequence from embeddings?
- Issue#25Andyargueasae2024-10-24 09:58Curriculum learning was not entering the epoch 2 and 3.
- Issue comment#24Andyargueasae2024-10-08 23:01Multiple training errors in the pre-training code
- Issue comment#24Andyargueasae2024-10-08 22:24Multiple training errors in the pre-training code
- Issue comment#23HelloWorldLTY2024-08-28 02:37Correct an error in unzipping the model file
- Pull request#23HelloWorldLTY2024-08-27 23:50
- Issue comment#22Zhihan19962024-08-27 21:59Questions about the training setting
- Issue#22HelloWorldLTY2024-08-27 06:27Questions about the training setting
- Issue comment#21Zhihan19962024-08-23 03:52Evaluation on private data
- Issue#21Zhihan19962024-08-23 03:52Evaluation on private data
- Issue comment#20Zhihan19962024-07-25 21:37Error loading model with AutoModel
- Issue#20Zhihan19962024-07-25 21:37Error loading model with AutoModel
- Issue comment#20rnowling2024-07-25 21:29Error loading model with AutoModel
- Issue comment#19Zhihan19962024-07-25 21:18Encountering problems using freshly installed DNABERT-S
- Issue#19Zhihan19962024-07-25 21:18Encountering problems using freshly installed DNABERT-S
- Issue comment#18Zhihan19962024-07-25 21:15Questions about tokenizer
- Issue#18Zhihan19962024-07-25 21:15Questions about tokenizer
- Issue comment#20Zhihan19962024-07-25 21:13Error loading model with AutoModel
- Issue#20rnowling2024-07-23 03:27Error loading model with AutoModel
- Issue#19cerebis2024-07-19 11:10Encountering problems running out of the box
Totals cover only the window loaded into ClickHouse and count events, not GitHub's lifetime totals — 52 stars here means stars gained during the window, not the repo's star count.