amberT15 / LLM_evalLinks
Code repository for study ''Evaluating the representational power of pre-trained DNA language models for regulatory genomics"
☆24Updated last year
Alternatives and similar repositories for LLM_eval
Users that are interested in LLM_eval are comparing it to the libraries listed below
Sorting:
- ☆42Updated 5 months ago
- Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of …☆38Updated 9 months ago
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆90Updated 2 months ago
- Toolkit for training hyenaDNA-based autoregressive language models on DNA sequences.☆50Updated last year
- code to run EPInformer for gene expression prediction and gene-enhancer link prediction☆44Updated 3 months ago
- ☆26Updated 2 years ago
- deep learning-inspired explainable sequence model for transcription initiation☆100Updated 10 months ago
- Computational Optimization of DNA Activity (CODA)☆67Updated 9 months ago
- ☆87Updated 2 months ago
- Explore a comprehensive collection of basic theories, applications, papers, and best practices about Large Language Models (LLMs) in geno…☆120Updated 3 weeks ago
- ☆15Updated 3 months ago
- ☆34Updated 11 months ago
- Evolution-inspired data augmentations for PyTorch-based models for regulatory genomics☆25Updated 7 months ago
- Machine learning methods for DNA sequence analysis.☆57Updated 4 months ago
- Elucidating the Utility of Genomic Elements with Neural Nets☆69Updated last year
- A tool for visualising kmers in 2D space.☆12Updated 10 months ago
- Evaluating genomic sequence models for explaining personalized expression variation☆19Updated 2 years ago
- accurate prediction of promoter activity and variant effects from massive parallel reporter assays☆43Updated 6 months ago
- For fine-tuning Enformer using paired WGS & gene expression data☆25Updated 4 months ago
- Code repository for the manuscript: Nucleotide dependency analysis of DNA language models reveals genomic functional elements☆24Updated 10 months ago
- ☆18Updated last year
- ☆18Updated last year
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆32Updated 11 months ago
- ☆14Updated this week
- Chromatin interaction aware gene regulatory modeling with graph attention networks☆28Updated 2 years ago
- ExplaiNN: interpretable and transparent neural networks for genomics☆49Updated 9 months ago
- Repository for "NucleoBench: A Large-Scale Benchmark of Neural Nucleic Acid Design Algorithms"☆25Updated last month
- sequence-based prediction of multiscale genome structure from kilobase to whole-chromosome scale☆93Updated 10 months ago
- ☆24Updated 4 months ago
- Comparing performance across many methodological dimensions among tools that predict RNA after TF knockdowns and overexpression.☆22Updated 4 months ago