CodonTransformer: The ultimate tool for codon optimization, optimizing DNA sequences for heterologous protein expression across 164 species.
active 2025-01-06 → 2026-04-20 (UTC)
Activity over time
Daily event counts in the loaded window
Line chart, 470 days from 2025-01-06 to 2026-04-20. Pushes: 2 total, peak 1 in a day. Pull requests: 0 total, peak 0 in a day. Issues: 16 total, peak 2 in a day. Comments: 13 total, peak 2 in a day. Stars: 49 total, peak 2 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 |
|---|---|---|---|---|
| Adibvafa | 13 | 2 | 0 | 7 |
| gui11aume | 2 | 0 | 0 | 2 |
| PlantDr430 | 2 | 0 | 0 | 0 |
| JJsmile24 | 2 | 0 | 0 | 1 |
| nongbaoting | 2 | 0 | 0 | 0 |
| kehan777 | 1 | 0 | 0 | 0 |
| ym3141 | 1 | 0 | 0 | 0 |
| nick-youngblut | 1 | 0 | 0 | 0 |
| ArtBioDesign | 1 | 0 | 0 | 0 |
| croviatrust | 1 | 0 | 0 | 0 |
| amirpandi | 1 | 0 | 0 | 1 |
| XiaoTigerHAO | 1 | 0 | 0 | 1 |
| chaofan520 | 1 | 0 | 0 | 0 |
| nicolazilio | 1 | 0 | 0 | 0 |
| JackKay404 | 1 | 0 | 0 | 1 |
| chenchengcen | 1 | 0 | 0 | 0 |
| Stella-zjy | 1 | 0 | 0 | 0 |
Recent activity
Latest issues, pull requests and releases
- Issue#40croviatrust2026-03-21 07:05📋 Documentation Enhancement Suggestion
- Issue comment#37Adibvafa2025-09-22 14:31support to add new species
- Issue#37chenchengcen2025-09-03 04:15support to add new species
- Issue comment#35Adibvafa2025-08-10 06:21IndexError when match_protein=True for long sequences
- Issue#35Adibvafa2025-08-10 06:21IndexError when match_protein=True for long sequences
- Issue comment#34JJsmile242025-07-11 15:26Does CodonTransformer support single-codon mutation prediction while preserving other codons?
- Issue#36nicolazilio2025-07-10 09:56Include Saccharomyces cerevisiae in the list organisms
- Issue#35Stella-zjy2025-07-04 11:36IndexError when match_protein=True for long sequences
- Issue comment#21Adibvafa2025-07-01 22:09User defined rules
- Issue comment#30Adibvafa2025-06-29 18:49Add organism list/summary to README
- Issue#30Adibvafa2025-06-29 18:49Add organism list/summary to README
- Issue comment#29Adibvafa2025-06-29 16:30codon sequence optimization for multiple species
- Issue comment#2JackKay4042025-06-26 09:05Add support for expanding the list of organisms
- Issue#34JJsmile242025-06-25 12:42Does CodonTransformer support single-codon mutation prediction while preserving other codons?
- Issue comment#32Adibvafa2025-05-21 03:41The package seems to work with onnxruntime==1.6.3, suggesting relaxing the requirement.
- Issue#32ym31412025-05-20 22:36The package seems to work with onnxruntime==1.6.3, suggesting relaxing the requirement.
- Issue#31nongbaoting2025-05-14 05:25sequence length limitation
- Issue#31nongbaoting2025-05-14 05:10sequence length limitation
- Issue#30nick-youngblut2025-04-30 03:17Add organism list/summary to README
- Issue#29chaofan5202025-04-25 02:43codon sequence optimization for multiple species
- Issue#26Adibvafa2025-04-13 18:07Database Issue
- Issue comment#27Adibvafa2025-04-13 18:06Can I finetune the model for a supervised prediction task?
- Issue#27Adibvafa2025-04-13 18:06Can I finetune the model for a supervised prediction task?
- Issue comment#26amirpandi2025-04-11 05:47Database Issue
- Issue comment#27gui11aume2025-04-10 02:31Can I finetune the model for a supervised prediction task?
Totals cover only the window loaded into ClickHouse and count events, not GitHub's lifetime totals — 49 stars here means stars gained during the window, not the repo's star count.