Alternatives and similar repositories for DART-Eval

Users that are interested in DART-Eval are comparing it to the libraries listed below

• johahi / borzoi-pytorch
  Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.
  ☆92Updated 2 months ago
• de-Boer-Lab / random-promoter-dream-challenge-2022
  ☆34Updated last year
• sjgosai / boda2
  Computational Optimization of DNA Activity (CODA)
  ☆67Updated 10 months ago
• amberT15 / LLM_eval
  Code repository for study ''Evaluating the representational power of pre-trained DNA language models for regulatory genomics"
  ☆24Updated last year
• autosome-ru / LegNet
  accurate prediction of promoter activity and variant effects from massive parallel reporter assays
  ☆43Updated 7 months ago
• jzhoulab / puffin
  deep learning-inspired explainable sequence model for transcription initiation
  ☆100Updated 11 months ago
• pinellolab / EPInformer
  code to run EPInformer for gene expression prediction and gene-enhancer link prediction
  ☆44Updated 2 weeks ago
• jmschrei / tfmodisco-lite
  A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.
  ☆87Updated 4 months ago
• Genentech / polygraph
  Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of …
  ☆38Updated 10 months ago
• shirondru / enformer_fine_tuning
  For fine-tuning Enformer using paired WGS & gene expression data
  ☆26Updated 5 months ago
• wassermanlab / ExplaiNN
  ExplaiNN: interpretable and transparent neural networks for genomics
  ☆49Updated 10 months ago
• Genentech / regLM
  Toolkit for training hyenaDNA-based autoregressive language models on DNA sequences.
  ☆50Updated last year
• castillohair / paper-5utr-design
  Code for "Optimizing 5’UTRs for mRNA-delivered gene editing using deep learning"
  ☆23Updated last year
• FunctionLab / sei-framework
  code to run sei and obtain sei and sequence class predictions
  ☆111Updated 3 years ago
• ML4GLand / EUGENe
  Elucidating the Utility of Genomic Elements with Neural Nets
  ☆69Updated last year
• mcvickerlab / GenVarLoader
  Dataloader for applying sequence models to personalized genomics
  ☆27Updated last week
• vagarwal87 / Xpresso
  Predicting gene expression levels from genomic sequences
  ☆54Updated 5 years ago
• mostafavilabuw / EnformerAssessment
  ☆25Updated last year
• tanjimin / C.Origami
  C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.
  ☆82Updated last year
• ni-lab / personalized-expression-benchmark
  Evaluating genomic sequence models for explaining personalized expression variation
  ☆19Updated 2 years ago
• p-koo / creme-nn
  https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2
  ☆32Updated last year
• ntranoslab / esm-variants
  ☆86Updated 2 years ago
• Illumina / PromoterAI
  ☆87Updated 2 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…
  ☆121Updated this week
• calico / baskerville
  Machine learning methods for DNA sequence analysis.
  ☆57Updated this week
• jmschrei / bpnet-lite
  This repository hosts a minimal version of a Python API for BPNet.
  ☆54Updated last week
• liu-bioinfo-lab / EPCOT
  ☆26Updated 2 years ago
• jzhoulab / puffin_manuscript
  ☆18Updated last year
• gagneurlab / dependencies_DNALM
  Code repository for the manuscript: Nucleotide dependency analysis of DNA language models reveals genomic functional elements
  ☆25Updated 10 months ago
• johli / aparent
  APA Regression Net - Predict and Engineer Alternative Polyadenylation
  ☆40Updated 4 years ago