Alternatives and similar repositories for DNABERT

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

• MAGICS-LAB / DNABERT_2
  [ICLR 2024] DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genome
  ☆431Updated 2 months ago
• instadeepai / nucleotide-transformer
  Foundation Models for Genomics & Transcriptomics
  ☆712Updated 3 months ago
• nadavbra / protein_bert
  ☆558Updated 6 months ago
• agemagician / ProtTrans
  ProtTrans is providing state of the art pretrained language models for proteins. ProtTrans was trained on thousands of GPUs from Summit a…
  ☆1,265Updated 5 months ago
• sacdallago / bio_embeddings
  Get protein embeddings from protein sequences
  ☆502Updated 2 years ago
• songlab-cal / gpn
  Genomic Pre-trained Network
  ☆298Updated last week
• lucidrains / enformer-pytorch
  Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch
  ☆537Updated 3 months ago
• ml4bio / RNA-FM
  Nature Methods: RNA foundation model (together with RhoFold)
  ☆314Updated 5 months ago
• steineggerlab / foldseek
  Foldseek enables fast and sensitive comparisons of large structure sets.
  ☆1,083Updated this week
• google-deepmind / alphamissense
  ☆592Updated last year
• songlab-cal / tape
  Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different dom…
  ☆719Updated 2 years ago
• calico / basenji
  Sequential regulatory activity predictions with deep convolutional neural networks.
  ☆457Updated 5 months ago
• soedinglab / hh-suite
  Remote protein homology detection suite.
  ☆598Updated 2 months ago
• soedinglab / MMseqs2
  MMseqs2: ultra fast and sensitive search and clustering suite
  ☆1,848Updated last week
• ML-Bioinfo-CEITEC / genomic_benchmarks
  Benchmarks for classification of genomic sequences
  ☆162Updated 2 months ago
• HazyResearch / hyena-dna
  Official implementation for HyenaDNA, a long-range genomic foundation model built with Hyena
  ☆725Updated 6 months ago
• weizhongli / cdhit
  Automatically exported from code.google.com/p/cdhit
  ☆705Updated 3 years ago
• Illumina / SpliceAI
  A deep learning-based tool to identify splice variants
  ☆464Updated 3 months ago
• flatironinstitute / DeepFRI
  Deep functional residue identification
  ☆334Updated 2 years ago
• Genentech / gReLU
  gReLU is a python library to train, interpret, and apply deep learning models to DNA sequences.
  ☆290Updated this week
• ViennaRNA / ViennaRNA
  The ViennaRNA Package
  ☆369Updated 3 months ago
• MAGICS-LAB / DNABERT_S
  [ISMB 2025] DNABERT_S: Learning Species-Aware DNA Embedding with Genome Foundation Models
  ☆116Updated 8 months ago
• OATML-Markslab / EVE
  Official repository for the paper "Large-scale clinical interpretation of genetic variants using evolutionary data and deep learning". Jo…
  ☆183Updated last year
• LucaOne / LucaOne
  The resources of LucaOne, including: the model code, training scripts, embedding inference code, and trained checkpoints.
  ☆304Updated last week
• tanghaibao / goatools
  Python library to handle Gene Ontology (GO) terms
  ☆863Updated last month
• OmicsML / awesome-deep-learning-single-cell-papers
  ☆813Updated 6 months ago
• YoshitakaMo / localcolabfold
  ColabFold on your local PC
  ☆770Updated 4 months ago
• TencentAILabHealthcare / scBERT
  ☆330Updated last year
• salesforce / progen
  Official release of the ProGen models
  ☆675Updated 2 years ago
• calico / borzoi
  RNA-seq prediction with deep convolutional neural networks.
  ☆199Updated 2 months ago