Alternatives and similar repositories for regLM

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

• Genentech / polygraph
  Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of …
  ☆32Updated 2 months ago
• johahi / borzoi-pytorch
  Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.
  ☆59Updated last week
• kundajelab / DART-Eval
  ☆34Updated last month
• sjgosai / boda2
  Computational Optimization of DNA Activity (CODA)
  ☆60Updated 2 months ago
• pinellolab / EPInformer
  code to run EPInformer for gene expression prediction and gene-enhancer links prioritization
  ☆43Updated 7 months ago
• dohlee / chromoformer
  The official code implementation for Chromoformer in PyTorch. (Lee et al., Nature Communications. 2022)
  ☆36Updated last year
• autosome-ru / LegNet
  accurate prediction of promoter activity and variant effects from massive parallel reporter assays
  ☆37Updated last month
• theislab / CellFlow
  Modeling complex perturbations with CellFlow
  ☆57Updated this week
• amberT15 / LLM_eval
  Code repository for study ''Evaluating the representational power of pre-trained DNA language models for regulatory genomics"
  ☆19Updated 11 months ago
• castillohair / paper-5utr-design
  Code for "Optimizing 5’UTRs for mRNA-delivered gene editing using deep learning"
  ☆21Updated 11 months ago
• shirondru / enformer_fine_tuning
  For fine-tuning Enformer using paired WGS & gene expression data
  ☆17Updated last month
• FunctionLab / tapioca
  a framework for predicting global protein-protein interaction networks from dynamic mass spec data
  ☆24Updated last year
• mhorlacher / rbpnet
  ☆18Updated last year
• aaronwtr / PertEval
  Evaluation suite for transcriptomic perturbation effect prediction models. Includes support for single-cell foundation models.
  ☆26Updated 2 months ago
• epigen / KPNN
  Knowledge-primed neural networks
  ☆38Updated 2 years ago
• Genentech / iterative-perturb-seq
  Sequential Optimal Experimental Design of Perturbation Screens Guided by Multimodal Priors
  ☆40Updated last year
• Genentech / decima
  Decima is a Python library to train sequence models on single-cell RNA-seq data.
  ☆38Updated this week
• de-Boer-Lab / random-promoter-dream-challenge-2022
  ☆29Updated 4 months ago
• GfellerLab / MixMHC2pred
  HLA-II ligand predictor.
  ☆43Updated 2 years ago
• de-Boer-Lab / hashFrag
  A command-line tool to mitigate homology-based data leakage in sequence-to-expression models
  ☆14Updated 3 months ago
• czi-ai / transcriptformer
  ☆51Updated last week
• ihh / bilby
  Jax code for functional genomics ML
  ☆14Updated 3 months ago
• schumacherlab / STAPLER
  STAPLER (Shared TCR And Peptide Language bidirectional Encoder Representations from transformers) is a language model that uses a joint T…
  ☆26Updated 2 months ago
• evanseitz / squid-nn
  surrogate quantitative interpretability for deepnets
  ☆23Updated last week
• ntranoslab / esm-variants
  ☆74Updated last year
• liu-bioinfo-lab / EPCOT
  ☆22Updated last year
• mcvickerlab / GenVarLoader
  Dataloader for applying sequence models to personalized genomics
  ☆26Updated 2 weeks ago
• ekernf01 / perturbation_benchmarking
  Comparing performance across many methodological dimensions among tools that predict RNA after TF knockdowns and overexpression.
  ☆19Updated 2 months ago
• TattaBio / DGEB
  Diverse Genomic Embedding Benchmark
  ☆45Updated 3 months ago
• pfizer-opensource / bigwig-loader
  A fast dataloader for bigwig files made for machine learning
  ☆28Updated last month