Alternatives and similar repositories for DNABERT_2:

Users that are interested in DNABERT_2 are comparing it to the libraries listed below

• songlab-cal / gpn
  Genomic Pre-trained Network
  ☆260Updated 2 weeks ago
• MAGICS-LAB / DNABERT_S
  DNABERT_S: Learning Species-Aware DNA Embedding with Genome Foundation Models
  ☆95Updated 2 months ago
• ml4bio / RNA-FM
  Nature Methods: RNA foundation model (together with RhoFold)
  ☆257Updated 4 months ago
• jerryji1993 / DNABERT
  DNABERT: pre-trained Bidirectional Encoder Representations from Transformers model for DNA-language in genome
  ☆650Updated last year
• ML-Bioinfo-CEITEC / genomic_benchmarks
  Benchmarks for classification of genomic sequences
  ☆140Updated 3 weeks ago
• instadeepai / nucleotide-transformer
  🧬 Nucleotide Transformer: Building and Evaluating Robust Foundation Models for Human Genomics
  ☆599Updated this week
• Genentech / gReLU
  gReLU is a python library to train, interpret, and apply deep learning models to DNA sequences.
  ☆256Updated 2 weeks ago
• steineggerlab / foldseek
  Foldseek enables fast and sensitive comparisons of large structure sets.
  ☆951Updated last week
• weizhongli / cdhit
  Automatically exported from code.google.com/p/cdhit
  ☆667Updated 2 years ago
• mheinzinger / ProstT5
  Bilingual Language Model for Protein Sequence and Structure
  ☆231Updated 3 months ago
• OATML-Markslab / EVE
  Official repository for the paper "Large-scale clinical interpretation of genetic variants using evolutionary data and deep learning". Jo…
  ☆168Updated last year
• frederikkemarin / BEND
  Benchmarking DNA Language Models on Biologically Meaningful Tasks
  ☆113Updated 5 months ago
• HazyResearch / hyena-dna
  Official implementation for HyenaDNA, a long-range genomic foundation model built with Hyena
  ☆664Updated 10 months ago
• calico / basenji
  Sequential regulatory activity predictions with deep convolutional neural networks.
  ☆429Updated last week
• theislab / single-cell-transformer-papers
  ☆306Updated last month
• lucidrains / enformer-pytorch
  Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch
  ☆473Updated 6 months ago
• biomap-research / scFoundation
  ☆319Updated 2 months ago
• flatironinstitute / DeepFRI
  Deep functional residue identification
  ☆317Updated 2 years ago
• apeterswu / Awesome-Bio-Foundation-Models
  A collection of awesome bio-foundation models, including protein, RNA, DNA, gene, single-cell, and so on.
  ☆208Updated last month
• KosinskiLab / AlphaPulldown
  ☆266Updated last week
• sacdallago / bio_embeddings
  Get protein embeddings from protein sequences
  ☆486Updated last year
• calico / borzoi
  RNA-seq prediction with deep convolutional neural networks.
  ☆138Updated 2 weeks ago
• OATML-Markslab / ProteinGym
  Official repository for the ProteinGym benchmarks
  ☆292Updated this week
• debbiemarkslab / EVcouplings
  Evolutionary couplings from protein and RNA sequence alignments
  ☆262Updated last month
• westlake-repl / SaProt
  Saprot: Protein Language Model with Structural Alphabet (AA+3Di)
  ☆434Updated 2 weeks ago
• snap-stanford / GEARS
  GEARS is a geometric deep learning model that predicts outcomes of novel multi-gene perturbations
  ☆249Updated 2 months ago
• soedinglab / hh-suite
  Remote protein homology detection suite.
  ☆568Updated 5 months ago
• TencentAILabHealthcare / scBERT
  ☆298Updated last year
• tttianhao / CLEAN
  CLEAN: a contrastive learning model for high-quality functional prediction of proteins
  ☆258Updated last week
• mat10d / EvolvePro
  This is the offical codebase to reproduce and use EVOLVEpro, a model for in silico directed evolution of protein activities using few-sho…
  ☆235Updated 2 weeks ago