frederikkemarin / BEND
Benchmarking DNA Language Models on Biologically Meaningful Tasks
☆108Updated 4 months ago
Alternatives and similar repositories for BEND:
Users that are interested in BEND are comparing it to the libraries listed below
- Repository for mRNA Paper and CodonBERT publication.☆124Updated 9 months ago
- Orthrus is a mature RNA model for RNA property prediction. It uses a mamba encoder backbone, a variant of state-space models specifical…☆56Updated last month
- RNA-seq prediction with deep convolutional neural networks.☆131Updated 3 months ago
- Benchmarks for classification of genomic sequences☆134Updated last year
- gReLU is a python library to train, interpret, and apply deep learning models to DNA sequences.☆251Updated this week
- Primary RNA sequence model☆35Updated 9 months ago
- ☆71Updated last year
- ☆20Updated 3 weeks ago
- Computational Optimization of DNA Activity (CODA)☆56Updated 2 months ago
- Stochastic Sequence Propagation - A Keras Model for optimizing DNA, RNA and protein sequences based on a predictor☆45Updated 7 months ago
- AI-Driven Digital Organism (AIDO) is a system of multiscale foundation models for predicting, simulating and programming biology at all l…☆67Updated 2 months ago
- ☆39Updated last year
- ☆31Updated 2 weeks ago
- Toolkit for training hyenaDNA-based autoregressive language models on DNA sequences.☆36Updated 5 months ago
- Genomic Pre-trained Network☆247Updated last week
- The official code implementation for Chromoformer in PyTorch. (Lee et al., Nature Communications. 2022)☆34Updated last year
- Official repository for the paper "Large-scale clinical interpretation of genetic variants using evolutionary data and deep learning". Jo…☆167Updated 11 months ago
- python tools for TCR:peptide-MHC modeling and analysis☆72Updated 11 months ago
- accurate prediction of promoter activity and variant effects from massive parallel reporter assays☆35Updated 4 months ago
- Explore a comprehensive collection of basic theories, applications, papers, and best practices about Large Language Models (LLMs) in geno…☆37Updated last week
- Code repository for study ''Evaluating the representational power of pre-trained DNA language models for regulatory genomics"☆17Updated 8 months ago
- Sequential Optimal Experimental Design of Perturbation Screens Guided by Multimodal Priors☆38Updated 9 months ago
- ☆78Updated 5 months ago
- RiboNucleic Acid (RNA) Language Model☆88Updated 2 weeks ago
- A repository with exploration into using transformers to predict DNA ↔ transcription factor binding☆84Updated 2 years ago
- Nature Methods: RhoFold+, Accurate RNA 3D structure prediction using a language model-based deep learning approach☆96Updated 2 months ago
- BigMHC predicts MHC-I (neo)epitope presentation and immunogenicity☆50Updated 10 months ago
- Biological sequence analysis for the modern age.☆209Updated this week
- ☆52Updated last year