TurtleTools / geometricusLinks
A structure-based, alignment-free embedding approach for proteins. Can be used as input to machine learning algorithms.
☆41Updated 2 years ago
Alternatives and similar repositories for geometricus
Users that are interested in geometricus are comparing it to the libraries listed below
Sorting:
- Fast and accurate protein structure prediction☆54Updated 8 months ago
- ☆32Updated 3 weeks ago
- ☆43Updated 11 months ago
- Prediction of binding residues for metal ions, nucleic acids, and small molecules.☆32Updated 2 weeks ago
- Embedding-based annotation transfer (EAT) uses Euclidean distance between vector representations (embeddings) of proteins to transfer ann…☆37Updated 2 weeks ago
- Computational tools for extremely low-cost, massively parallel amplicon-based sequencing of every variant in protein mutant libraries.☆34Updated 3 years ago
- A tool for accurate prediction of a protein's secondary structure from only it's amino acid sequence☆59Updated 5 months ago
- Python package to atom map, correct and suggest enzymatic reactions☆39Updated last year
- We introduce a differentiable approach to phylogenetic tree construction, optimizing tree and ancestral sequences in its original represe…☆20Updated last year
- Fast protein structure searching or your money back☆112Updated 5 months ago
- ☆71Updated 11 months ago
- 2D portraits of 3D protein structures☆25Updated 2 weeks ago
- Code and data to reproduce analyses in Biswas et al. (2020) "Low-N protein engineering with data-efficient deep learning".☆59Updated 4 years ago
- Evolutionary velocity with protein language models☆94Updated last year
- PDBench is a dataset and software package for evaluating fixed-backbone sequence design algorithms.☆30Updated 2 years ago
- Python package to manage protein structures and their annotations☆44Updated last year
- ☆22Updated 3 months ago
- Graph Network for protein-protein interface including language model features☆32Updated last year
- Learning Protein Constitutive Motifs from Sequence Data: RBM toolbox☆20Updated 6 years ago
- ☆30Updated last year
- The DSSP building software☆47Updated 2 years ago
- The standalone version of SPOT-1D-Single available for public use for research purposes.☆24Updated last year
- Direct coupling analysis software for protein and RNA sequences☆52Updated last month
- Repository for Protein-Vec, a protein embedding mixture of experts model☆38Updated last year
- ML toolset for creating TED: The Encyclopedia of Domains☆21Updated 3 months ago
- ☆36Updated 8 months ago
- Code, intermediate results and an interactive visualisation on prediction of putative novel enzymes and small molecule binding proteins p…☆26Updated 2 years ago
- pdbx is a parser module in python for structures of the protein data bank in the mmcif format☆28Updated last year
- Parametric Building of de novo Functional Topologies☆44Updated 3 years ago
- A complete, open-source, end-to-end re-implementation of the Church Lab's low-N eUniRep in silico protein engineering pipeline presented …☆27Updated 5 years ago