ramithuh / diff-evol-tree-searchLinks
We introduce a differentiable approach to phylogenetic tree construction, optimizing tree and ancestral sequences in its original representation itself, thus requiring no prior training data.
☆20Updated last year
Alternatives and similar repositories for diff-evol-tree-search
Users that are interested in diff-evol-tree-search are comparing it to the libraries listed below
Sorting:
- A structure-based, alignment-free embedding approach for proteins. Can be used as input to machine learning algorithms.☆41Updated 2 years ago
- 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
- ☆43Updated last year
- Fast and accurate protein structure prediction☆56Updated 9 months ago
- ☆30Updated last year
- ☆23Updated 2 weeks ago
- ☆70Updated last year
- A tool for accurate prediction of a protein's secondary structure from only it's amino acid sequence☆60Updated 6 months ago
- ML toolset for creating TED: The Encyclopedia of Domains☆24Updated 5 months ago
- Computational tools for extremely low-cost, massively parallel amplicon-based sequencing of every variant in protein mutant libraries.☆34Updated 3 years ago
- ☆11Updated 4 years ago
- Results and data from the pilot round of the Protein Engineering Tournament☆30Updated 7 months ago
- ☆32Updated last month
- Fast and accurate protein domain segmentation using Invariant Point Attention☆42Updated 5 months ago
- Graph-based community clustering approach to extract protein domains from a predicted aligned error matrix☆35Updated 3 years ago
- DE-STRESS is a model evaluation pipeline that aims to make protein design more reliable and accessible.☆27Updated 7 months ago
- ☆23Updated 2 years ago
- Neural networks to fit interpretable models and quantify energies, energetic couplings, epistasis, and allostery from deep mutational sca…☆54Updated 6 months ago
- Code associated with the paper 'Cracking the blackbox of deep sequence-based protein-protein interaction prediction'☆26Updated last year
- Repository for Protein-Vec, a protein embedding mixture of experts model☆38Updated last year
- Machine learning prediction of enzyme optimum pH☆47Updated 6 months ago
- Expert-Guided Protein Language Models enable Accurate and Blazingly Fast Fitness Prediction☆15Updated last month
- GTalign, high-performance protein structure alignment, superposition and search☆51Updated 2 months ago
- Kuhlman Lab Installation of AlphaFold3☆36Updated last month
- Embedding-based annotation transfer (EAT) uses Euclidean distance between vector representations (embeddings) of proteins to transfer ann…☆37Updated 2 months ago
- Deciphering protein evolution and fitness landscapes with latent space models☆35Updated 3 years ago
- A domain parser for Alphafold models☆41Updated last year
- ☆37Updated 4 months ago
- Fast protein structure searching or your money back☆114Updated 2 weeks ago