Alternatives and similar repositories for DNA-transformer

Users that are interested in DNA-transformer are comparing it to the libraries listed below

• kundajelab / DART-Eval
  ☆36Updated 2 weeks ago
• kundajelab / tfmodisco
  TF MOtif Discovery from Importance SCOres
  ☆145Updated last year
• 1edv / evolution
  This repository contains the code for our manuscript - 'The evolution, evolvability, and engineering gene regulatory DNA'
  ☆95Updated 2 years ago
• kipoi / kipoiseq
  Standard set of data-loaders for training and making predictions for DNA sequence-based models.
  ☆82Updated 11 months ago
• Rvbens / non-coding-DNA-classifier
  Deep learning multi-label classifier of non-coding DNA sequences
  ☆12Updated 5 years ago
• johahi / borzoi-pytorch
  Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.
  ☆68Updated last month
• ML-Bioinfo-CEITEC / genomic_benchmarks
  Benchmarks for classification of genomic sequences
  ☆150Updated last week
• kundajelab / bpnet
  Toolkit to train base-resolution deep neural networks on functional genomics data and to interpret them
  ☆160Updated last year
• gdewael / cpg-transformer
  CpG Transformer for imputation of single-cell methylomes
  ☆38Updated last year
• jakublipinski / build-deepsea-training-dataset
  Build DeepSea training dataset from raw data
  ☆27Updated 2 years ago
• jmschrei / tfmodisco-lite
  A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.
  ☆83Updated last month
• MedChaabane / DeepBind-with-PyTorch
  CNN architecture for predicting DNA binding sites for Transcription Factors
  ☆52Updated 6 years ago
• FunctionLab / ExPecto
  predicting expression effects of human genome variants ab initio from sequence
  ☆128Updated 6 months ago
• johli / aparent
  APA Regression Net - Predict and Engineer Alternative Polyadenylation
  ☆39Updated 3 years ago
• smolkelab / promoter_design
  Promoter activity measurement and modeling; artificial promoter design and testing
  ☆12Updated 2 years ago
• OATML-Markslab / EVE
  Official repository for the paper "Large-scale clinical interpretation of genetic variants using evolutionary data and deep learning". Jo…
  ☆177Updated last year
• dohlee / chromoformer
  The official code implementation for Chromoformer in PyTorch. (Lee et al., Nature Communications. 2022)
  ☆36Updated 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
• bio-ontology-research-group / deepgo
  Function prediction using a deep ontology-aware classifier
  ☆84Updated 2 years ago
• ArnovanHilten / GenNet
  Framework for Interpretable Neural Networks
  ☆108Updated 4 months ago
• QData / FastSK
  Bioinformatics 2020: FastSK: Fast and Accurate Sequence Classification by making gkm-svm faster and scalable. https://fastsk.readthedocs.…
  ☆21Updated 2 years ago
• melobio / LOGO
  ☆18Updated 2 years ago
• HLTCHKUST / snp2vec
  Code and dataset for SNP2Vec paper
  ☆21Updated 2 years ago
• autosome-ru / LegNet
  accurate prediction of promoter activity and variant effects from massive parallel reporter assays
  ☆38Updated last month
• sjgosai / boda2
  Computational Optimization of DNA Activity (CODA)
  ☆60Updated 4 months ago
• FunctionLab / sei-framework
  code to run sei and obtain sei and sequence class predictions
  ☆106Updated 2 years ago
• ntranoslab / esm-variants
  ☆77Updated last year
• bm2-lab / DeepCRISPR
  ☆65Updated 2 years ago
• pinellolab / EPInformer
  code to run EPInformer for gene expression prediction and gene-enhancer links prioritization
  ☆44Updated 8 months ago
• epigen / KPNN
  Knowledge-primed neural networks
  ☆38Updated 2 years ago