Alternatives and similar repositories for bio_embeddings

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

• nadavbra / protein_bert
  ☆547Updated 5 months ago
• churchlab / UniRep
  UniRep model, usage, and examples.
  ☆355Updated 3 years ago
• songlab-cal / tape
  Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different dom…
  ☆717Updated 2 years ago
• microsoft / protein-sequence-models
  ☆251Updated last year
• flatironinstitute / DeepFRI
  Deep functional residue identification
  ☆330Updated 2 years ago
• biolists / folding_tools
  A collection of *fold* tools
  ☆298Updated last month
• Rostlab / SeqVec
  Modelling the Language of Life - Deep Learning Protein Sequences
  ☆119Updated 5 years ago
• tbepler / protein-sequence-embedding-iclr2019
  Source code for "Learning protein sequence embeddings using information from structure" - ICLR 2019
  ☆261Updated 4 years ago
• soedinglab / hh-suite
  Remote protein homology detection suite.
  ☆590Updated last month
• agemagician / ProtTrans
  ProtTrans is providing state of the art pretrained language models for proteins. ProtTrans was trained on thousands of GPUs from Summit a…
  ☆1,250Updated 3 months ago
• Graylab / IgFold
  Fast, accurate antibody structure prediction from deep learning on massive set of natural antibodies
  ☆372Updated 2 years ago
• debbiemarkslab / EVcouplings
  Evolutionary couplings from protein and RNA sequence alignments
  ☆276Updated last week
• RosettaCommons / PyRosetta.notebooks
  Jupyter Notebooks for learning the PyRosetta platform for biomolecular structure prediction and design
  ☆607Updated last year
• OATML-Markslab / ProteinGym
  Official repository for the ProteinGym benchmarks
  ☆347Updated last month
• uw-ipd / RoseTTAFold2NA
  RoseTTAFold2 protein/nucleic acid complex prediction
  ☆365Updated last year
• LPDI-EPFL / masif
  MaSIF- Molecular surface interaction fingerprints. Geometric deep learning to decipher patterns in molecular surfaces.
  ☆685Updated last year
• Biomatter-Designs / ProteinGAN
  ☆190Updated 3 years ago
• debbiemarkslab / DeepSequence
  A generative latent variable model for biological sequence families.
  ☆236Updated 3 years ago
• sokrypton / ColabDesign
  Making Protein Design accessible to all via Google Colab!
  ☆796Updated 3 weeks ago
• brianhie / efficient-evolution
  Efficient evolution from protein language models
  ☆213Updated 2 years ago
• RosettaCommons / RFDesign
  Protein hallucination and inpainting with RoseTTAFold
  ☆267Updated 2 years ago
• jonathanking / sidechainnet
  An all-atom protein structure dataset for machine learning.
  ☆355Updated last year
• DeepChainBio / bio-transformers
  bio-transformers is a wrapper on top of the ESM/Protbert model, trained on millions on proteins and used to predict embeddings.
  ☆155Updated last year
• salesforce / provis
  Official code repository of "BERTology Meets Biology: Interpreting Attention in Protein Language Models."
  ☆301Updated 4 months ago
• HannesStark / EquiBind
  EquiBind: geometric deep learning for fast predictions of the 3D structure in which a small molecule binds to a protein
  ☆515Updated 6 months ago
• steineggerlab / foldseek
  Foldseek enables fast and sensitive comparisons of large structure sets.
  ☆1,060Updated last week
• mheinzinger / ProstT5
  Bilingual Language Model for Protein Sequence and Structure
  ☆268Updated 8 months ago
• ml4bio / RNA-FM
  Nature Methods: RNA foundation model (together with RhoFold)
  ☆303Updated 3 months ago
• martinpacesa / BindCraft
  User friendly and accurate binder design pipeline
  ☆765Updated last month
• adaptyvbio / ProteinFlow
  Versatile computational pipeline for processing protein structure data for deep learning applications.
  ☆264Updated last year