churchlab / low-N-protein-engineeringView external linksLinks
Code and data to reproduce analyses in Biswas et al. (2020) "Low-N protein engineering with data-efficient deep learning".
☆60Apr 8, 2021Updated 4 years ago
Alternatives and similar repositories for low-N-protein-engineering
Users that are interested in low-N-protein-engineering are comparing it to the libraries listed below
Sorting:
- A complete, open-source, end-to-end re-implementation of the Church Lab's low-N eUniRep in silico protein engineering pipeline presented …☆27Aug 7, 2020Updated 5 years ago
- UniRep model, usage, and examples.☆360Jun 21, 2022Updated 3 years ago
- A machine-learning package for navigating combinatorial protein fitness landscapes.☆133Nov 17, 2021Updated 4 years ago
- Code for our paper "Protein sequence design with a learned potential"☆82Sep 8, 2023Updated 2 years ago
- Codebase for our preprint using trRosetta to design proteins with discontinuous functional sites, found here: https://www.biorxiv.org/con…☆16Oct 27, 2021Updated 4 years ago
- trRosetta for protein design☆183May 15, 2021Updated 4 years ago
- Fitness landscape exploration sandbox for biological sequence design.☆170Feb 16, 2023Updated 3 years ago
- ☆192Feb 8, 2022Updated 4 years ago
- Variational autoencoder for protein sequences - add metal binding sites and generate sequences for novel topologies☆94Jul 13, 2023Updated 2 years ago
- Reimplementation of the UniRep protein featurization model.☆108Sep 3, 2024Updated last year
- ☆60Nov 21, 2022Updated 3 years ago
- Contact map alignment☆42Feb 3, 2021Updated 5 years ago
- We introduce a differentiable approach to phylogenetic tree construction, optimizing tree and ancestral sequences in its original represe…☆20Nov 27, 2023Updated 2 years ago
- Parametric Building of de novo Functional Topologies☆44Mar 11, 2022Updated 3 years ago
- Bioinformatics code for paper associated with deep diversification of AAV☆42Nov 27, 2024Updated last year
- Scripts and data deposition for de novo heterodimers manuscript☆11Dec 15, 2018Updated 7 years ago
- HiCOPS: Computational framework for peptide identification from MS data through accelerated database search☆10Mar 24, 2023Updated 2 years ago
- Software to process, statistically analyse and visualise deep mutational scanning data☆14Oct 29, 2025Updated 3 months ago
- BPNet manuscript code.☆12Dec 1, 2020Updated 5 years ago
- Integrating influenza antigenic dynamics with molecular evolution☆12May 28, 2015Updated 10 years ago
- Tool for modelling the CDRs of antibodies☆50Jan 19, 2023Updated 3 years ago
- Evolutionary couplings from protein and RNA sequence alignments☆297Oct 23, 2025Updated 3 months ago
- A generative latent variable model for biological sequence families.☆247Mar 15, 2022Updated 3 years ago
- ☆76Oct 27, 2021Updated 4 years ago
- ☆25May 9, 2022Updated 3 years ago
- De Novo Protein Design by Equivariantly Diffusing Oriented Residue Clouds☆185Apr 21, 2024Updated last year
- ☆74Sep 2, 2020Updated 5 years ago
- Determining tandem repeat lengths using raw nanopore signals.☆15Sep 11, 2023Updated 2 years ago
- Pytorch implementation for ICML 2024 paper Proteus: Exploring Protein Structure Generation for Enhanced Designability and Efficiency.☆85Jun 23, 2024Updated last year
- Protein hallucination and inpainting with RoseTTAFold☆279Mar 30, 2023Updated 2 years ago
- Protein design and variant prediction using autoregressive generative models☆119Jan 23, 2024Updated 2 years ago
- Efficient evolution from protein language models☆220Aug 26, 2023Updated 2 years ago
- ☆27Feb 8, 2026Updated last week
- Implementation and replication of ProGen, Language Modeling for Protein Generation, in Jax☆113Sep 8, 2021Updated 4 years ago
- ☆18Mar 13, 2024Updated last year
- open source repository☆146Nov 30, 2023Updated 2 years ago
- Official repository for "Plug & Play Directed Evolution for Proteins with Gradient-Based Discrete MCMC"☆12Jul 18, 2023Updated 2 years ago
- Explaining the genetic causality for complex diseases by deep association kernel learning☆15May 7, 2021Updated 4 years ago
- Repository containing a method for automatically identifying pathogen lineages from a phylogeny.☆17May 19, 2023Updated 2 years ago