CodonBert: a BERT-based architecture tailored for codon optimization using the cross-attention mechanism.
☆44Sep 12, 2024Updated 2 years ago
Alternatives and similar repositories for CodonBERT
Users that are interested in CodonBERT are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- iCodon customizes gene expression based on the codon composition☆16Oct 28, 2023Updated 2 years ago
- Protein language model trained on coding DNA☆56Oct 20, 2024Updated last year
- CodonTransformer (2M+ Downloads); The tool for codon optimization, optimizing DNA for protein expression☆225Jul 27, 2025Updated last year
- A neural based approach to the task of genetic codon optimization☆19Aug 17, 2020Updated 6 years ago
- Codon optimizer for tissue-specific expression☆17Sep 26, 2024Updated last year
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Learning to Generate UTR Sequences for Optimized Ribosome Load and Gene Expression☆25May 11, 2025Updated last year
- Repository for mRNA Paper and CodonBERT publication.☆147May 19, 2026Updated 4 months ago
- ☆17Dec 17, 2025Updated 9 months ago
- ☆17Updated this week
- RNN-based Codon Optimization Tool. Publication: https://doi.org/10.1186/s12859-023-05246-8☆72Apr 10, 2023Updated 3 years ago
- This repository hosts the software of GEMORNA, a generative AI tool for mRNA sequence design.☆101Nov 11, 2025Updated 10 months ago
- Multi-Species Codon Optimization Engine☆28Jul 16, 2025Updated last year
- Rep-Seq data analysis tutorial☆12Dec 6, 2017Updated 8 years ago
- A computational method to optimize degenerate codons for synthesizing an informed combinatorial mutagenesis protein variant library☆17Feb 18, 2025Updated last year
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- SCAN2 is a somatic SNV and indel genotyper for single cells amplified by Primary Template-Directed Amplification (PTA)☆23Jul 28, 2025Updated last year
- ☆12Jul 15, 2026Updated 2 months ago
- REMoving Bias from Rna-seq ANalysis of Differential Transcript Stability☆15Dec 16, 2023Updated 2 years ago
- This is the official repository of paper - GeoAB: Towards Realistic Antibody Design and Reliable Affinity Maturation (ICML2024)☆46Jun 17, 2024Updated 2 years ago
- Code for "Optimizing 5’UTRs for mRNA-delivered gene editing using deep learning"☆25Jul 2, 2024Updated 2 years ago
- ☆20Dec 5, 2024Updated last year
- Code used in paper for G-loop mining.☆24Feb 23, 2025Updated last year
- Associated code/pipeline for the publication "AI-assisted protein design to rapidly convert antibody sequences to intrabodies targeting d…☆16Feb 18, 2025Updated last year
- ☆18May 16, 2026Updated 4 months ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- RDKit中文教程☆16Jun 21, 2020Updated 6 years ago
- RNAFlow: RNA Structure & Sequence Design via Inverse Folding-Based Flow Matching☆86Aug 11, 2024Updated 2 years ago
- Saluki, a method to predict mRNA half-lives from sequence☆30Oct 7, 2022Updated 3 years ago
- ☆97Oct 9, 2024Updated last year
- Models, design algorithms, and other software related to Salis lab publications☆38Aug 5, 2026Updated last month
- Online solubility prediction tool (streamlit) that runs the top-performing ML model (AqSolPred).☆10Nov 11, 2024Updated last year
- MTAE-based 5UTR design model☆12Jan 23, 2024Updated 2 years ago
- ☆14Apr 10, 2024Updated 2 years ago
- Software to process, statistically analyse and visualise deep mutational scanning data☆14Aug 3, 2026Updated last month
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- RiboNN: predicting translation efficiencies from mRNA sequences☆67Jan 12, 2026Updated 8 months ago
- ☆23Jul 14, 2024Updated 2 years ago
- Repo for advertising and organizing VICC, CGC, CIViC, & ClinGen Somatic: Variant Curation & Coding Unconference/meeting activities☆10Jun 2, 2026Updated 3 months ago
- Tutorial on how to use Ginkgo AI embedding APIs for scientific problems☆19Nov 22, 2024Updated last year
- Differentiable RNA folding in JAX☆31Mar 25, 2025Updated last year
- Struct2GO:protein function prediction based on Graph pooling algorithm and AlphaFold2 structure information☆29Feb 26, 2024Updated 2 years ago
- Flexible analysis of high-content CRISPR screening☆34Updated this week