Alternatives and similar repositories for protgps

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

• phbradley / TCRdock
  python tools for TCR:peptide-MHC modeling and analysis
  ☆87Updated last year
• timkartar / DeepPBS
  Geometric deep learning of protein–DNA binding specificity
  ☆76Updated 10 months ago
• MIDIfactory / AlphaFastPPi
  Fast AlphaFold-Multimer based pipeline for Protein-Protein Interaction (PPI) screening
  ☆39Updated last year
• steineggerlab / colabfold-protocol
  ColabFold protocol
  ☆56Updated last year
• ntranoslab / esm-variants
  ☆86Updated 2 years ago
• brianhie / evolocity
  Evolutionary velocity with protein language models
  ☆95Updated last month
• KarchinLab / bigmhc
  BigMHC predicts MHC-I (neo)epitope presentation and immunogenicity
  ☆60Updated last month
• a96123155 / UTR-LM
  ☆92Updated last year
• shenyichong / alphafold3-architecture-walkthrough
  alphafold3 architecture step by step walkthrough.
  ☆205Updated 7 months ago
• ml4bio / Dense-Homolog-Retrieval
  Nature Biotechnology: Ultra-fast, sensitive detection of protein remote homologs using deep dense retrieval
  ☆121Updated last year
• patrickbryant1 / SpeedPPI
  Rapid protein-protein interaction network creation from multiple sequence alignments with Deep Learning
  ☆91Updated last year
• Adibvafa / CodonTransformer
  CodonTransformer (1M+ Downloads); The tool for codon optimization, optimizing DNA for protein expression
  ☆191Updated 6 months ago
• CongLabCode / RoseTTAFold2-PPI
  Fast deep learning methods for large-scale protein-protein interaction screening
  ☆115Updated 5 months ago
• Shunsuke-1994 / rfamgen
  Code repository of "Deep generative design of RNA family sequences"
  ☆40Updated 2 months ago
• instadeepai / InstaNovo
  De novo peptide sequencing with InstaNovo: Accurate, database-free peptide identification for large scale proteomics experiments
  ☆112Updated last month
• lulab / OligoFormer
  ☆46Updated 2 months ago
• samsledje / D-SCRIPT
  A structure-aware interpretable deep learning model for sequence-based prediction of protein-protein interactions
  ☆107Updated 3 weeks ago
• VarunUllanat / mint
  Learning the language of protein-protein interactions
  ☆124Updated 2 weeks ago
• maovshao / PLMSearch
  PLMSearch enables accurate and fast homologous protein search with only sequences as input
  ☆77Updated 4 months ago
• oxpig / CaLM
  Protein language model trained on coding DNA
  ☆53Updated last year
• frankligy / DeepImmuno
  Deep-learning empowered prediction and generation of immunogenic epitopes for T cell immunity
  ☆74Updated 2 years ago
• kuixu / alphafold
  Install alphafold on the local machine, get out of docker.
  ☆103Updated 4 years ago
• haiyuan-yu-lab / PIONEER
  ☆29Updated last year
• fteufel / signalp-6.0
  Multi-class signal peptide prediction and structure decoding model.
  ☆102Updated 11 months ago
• FPPGroup / CodonBERT
  CodonBert: a BERT-based architecture tailored for codon optimization using the cross-attention mechanism.
  ☆41Updated last year
• tymor22 / tm-vec
  ☆76Updated last year
• churchlab / low-N-protein-engineering
  Code and data to reproduce analyses in Biswas et al. (2020) "Low-N protein engineering with data-efficient deep learning".
  ☆60Updated 4 years ago
• Devil625 / Codon_Optimization
  https://www.nature.com/articles/s41598-020-74091-z#Tab1
  ☆41Updated last year
• flatironinstitute / deepblast
  Neural Networks for Protein Sequence Alignment
  ☆135Updated last year
• chayan7 / flashfold
  A tool for protein and protein complex structure prediction.
  ☆29Updated 7 months ago