amberT15 / LLM_eval
Code repository for study ''Evaluating the representational power of pre-trained DNA language models for regulatory genomics"
☆17Updated 7 months ago
Alternatives and similar repositories for LLM_eval:
Users that are interested in LLM_eval are comparing it to the libraries listed below
- ☆26Updated last month
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆35Updated 3 weeks ago
- Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of …☆28Updated last month
- Computational Optimization of DNA Activity (CODA)☆55Updated last month
- ☆26Updated 2 weeks ago
- Evaluating genomic sequence models for explaining personalized expression variation☆19Updated last year
- Dataloader for applying sequence models to personalized genomics☆22Updated this week
- code to run EPInformer for gene expression prediction and gene-enhancer links prioritization☆35Updated 2 months ago
- Toolkit for training hyenaDNA-based autoregressive language models on DNA sequences.☆36Updated 4 months ago
- The official code implementation for Chromoformer in PyTorch. (Lee et al., Nature Communications. 2022)☆34Updated last year
- ☆17Updated 10 months ago
- RNA-seq prediction with deep convolutional neural networks.☆121Updated 2 months ago
- ☆71Updated last year
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆56Updated last year
- PyTorch implementation of Basenji2.☆15Updated last year
- ExplaiNN: interpretable and transparent neural networks for genomics☆47Updated 2 weeks ago
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆28Updated 3 weeks ago
- Diverse Genomic Embedding Benchmark☆38Updated 4 months ago
- A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.☆67Updated this week
- ☆17Updated 3 months ago
- accurate prediction of promoter activity and variant effects from massive parallel reporter assays☆34Updated 3 months ago
- Elucidating the Utility of Genomic Elements with Neural Nets☆65Updated 2 months ago
- Evolution-inspired data augmentations for PyTorch-based models for regulatory genomics☆19Updated last year
- deep learning-inspired explainable sequence model for transcription initiation☆93Updated 3 months ago
- Explore a comprehensive collection of basic theories, applications, papers, and best practices about Large Language Models (LLMs) in geno…☆28Updated this week
- ☆64Updated 6 months ago
- ☆20Updated last year
- This repository hosts a minimal version of a Python API for BPNet.☆36Updated this week
- Predicting gene expression levels from genomic sequences☆51Updated 4 years ago
- ☆17Updated 5 months ago