amberT15 / LLM_evalLinks
Code repository for study ''Evaluating the representational power of pre-trained DNA language models for regulatory genomics"
☆22Updated 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:
- Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of …☆35Updated 6 months ago
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆75Updated 3 weeks ago
- ☆41Updated 2 months ago
- For fine-tuning Enformer using paired WGS & gene expression data☆22Updated last month
- code to run EPInformer for gene expression prediction and gene-enhancer link prediction☆43Updated 2 weeks ago
- Computational Optimization of DNA Activity (CODA)☆61Updated 6 months ago
- Elucidating the Utility of Genomic Elements with Neural Nets☆70Updated 10 months ago
- ☆24Updated last year
- deep learning-inspired explainable sequence model for transcription initiation☆96Updated 7 months ago
- Machine learning methods for DNA sequence analysis.☆55Updated last month
- ☆78Updated 3 months ago
- ☆32Updated 8 months ago
- Explore a comprehensive collection of basic theories, applications, papers, and best practices about Large Language Models (LLMs) in geno…☆101Updated last month
- A tool for visualising kmers in 2D space.☆11Updated 7 months ago
- Pipeline for generating reference and perturbed sequences for input into predictive models.☆11Updated 10 months ago
- Evaluating genomic sequence models for explaining personalized expression variation☆19Updated last year
- PyTorch implementation of Basenji2.☆16Updated 5 months ago
- Toolkit for training hyenaDNA-based autoregressive language models on DNA sequences.☆46Updated last year
- ☆18Updated last year
- Dataloader for applying sequence models to personalized genomics☆27Updated last week
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆30Updated 8 months ago
- A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.☆84Updated 2 weeks ago
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆67Updated 2 years ago
- ☆17Updated 11 months ago
- accurate prediction of promoter activity and variant effects from massive parallel reporter assays☆42Updated 3 months ago
- ☆67Updated 7 months ago
- ExplaiNN: interpretable and transparent neural networks for genomics☆49Updated 6 months ago
- code to run sei and obtain sei and sequence class predictions☆109Updated 2 years ago
- Chromatin interaction aware gene regulatory modeling with graph attention networks☆27Updated 2 years ago
- RNA-seq prediction with deep convolutional neural networks.☆198Updated last month