Alternatives and similar repositories for regLM

Users that are interested in regLM are comparing it to the libraries listed below

• kundajelab / DART-Eval
  ☆36Updated 2 weeks ago
• sjgosai / boda2
  Computational Optimization of DNA Activity (CODA)
  ☆60Updated 4 months ago
• autosome-ru / LegNet
  accurate prediction of promoter activity and variant effects from massive parallel reporter assays
  ☆38Updated last month
• johahi / borzoi-pytorch
  Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.
  ☆68Updated last month
• Genentech / polygraph
  Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of …
  ☆34Updated 4 months ago
• pinellolab / EPInformer
  code to run EPInformer for gene expression prediction and gene-enhancer links prioritization
  ☆44Updated 8 months ago
• dohlee / chromoformer
  The official code implementation for Chromoformer in PyTorch. (Lee et al., Nature Communications. 2022)
  ☆36Updated last year
• amberT15 / LLM_eval
  Code repository for study ''Evaluating the representational power of pre-trained DNA language models for regulatory genomics"
  ☆20Updated last year
• mhorlacher / rbpnet
  ☆18Updated last year
• castillohair / paper-5utr-design
  Code for "Optimizing 5’UTRs for mRNA-delivered gene editing using deep learning"
  ☆21Updated last year
• OATML / EVE
  Official repository for the paper "Large-scale clinical interpretation of genetic variants using evolutionary data and deep learning". Jo…
  ☆67Updated 2 years ago
• de-Boer-Lab / random-promoter-dream-challenge-2022
  ☆31Updated 6 months ago
• ychuest / Awesome-LLMs-meet-genomes
  Explore a comprehensive collection of basic theories, applications, papers, and best practices about Large Language Models (LLMs) in geno…
  ☆79Updated last week
• johli / scrambler
  Interpretation by Deep Generative Masking for Biological Sequences
  ☆37Updated 3 years ago
• evanseitz / squid-nn
  surrogate quantitative interpretability for deepnets
  ☆24Updated last week
• ntranoslab / esm-variants
  ☆77Updated last year
• shirondru / enformer_fine_tuning
  For fine-tuning Enformer using paired WGS & gene expression data
  ☆19Updated 3 months ago
• FunctionLab / tapioca
  a framework for predicting global protein-protein interaction networks from dynamic mass spec data
  ☆24Updated last year
• jzhoulab / puffin
  deep learning-inspired explainable sequence model for transcription initiation
  ☆97Updated 5 months ago
• ekernf01 / perturbation_benchmarking
  Comparing performance across many methodological dimensions among tools that predict RNA after TF knockdowns and overexpression.
  ☆19Updated 4 months ago
• ihh / bilby
  Jax code for functional genomics ML
  ☆14Updated 5 months ago
• epigen / KPNN
  Knowledge-primed neural networks
  ☆38Updated 2 years ago
• eternagame / DegScore
  Arnie-based DegScore tool.
  ☆26Updated 2 years ago
• johli / seqprop
  Stochastic Sequence Propagation - A Keras Model for optimizing DNA, RNA and protein sequences based on a predictor
  ☆49Updated 11 months ago
• p-koo / evoaug
  Evolution-inspired data augmentations for PyTorch-based models for regulatory genomics
  ☆23Updated 2 months ago
• ni-lab / personalized-expression-benchmark
  Evaluating genomic sequence models for explaining personalized expression variation
  ☆20Updated last year
• pjsample / human_5utr_modeling
  Modeling of human 5′ UTRs enables the design of new sequences for target levels of translation and 5′ UTR variant prediction.
  ☆50Updated 6 years ago
• GfellerLab / MixMHC2pred
  HLA-II ligand predictor.
  ☆44Updated 2 years ago
• calico / baskerville
  Machine learning methods for DNA sequence analysis.
  ☆51Updated last month
• bowang-lab / Orthrus
  Orthrus is a mature RNA model for RNA property prediction. It uses a mamba encoder backbone, a variant of state-space models specifical…
  ☆71Updated 2 weeks ago