106 Repositories
Python protein-sequences Libraries
Compute distance between sequences. 30+ algorithms, pure python implementation, common interface, optional external libs usage.
TextDistance TextDistance -- python library for comparing distance between two or more sequences by many algorithms. Features: 30+ algorithms Pure pyt
3k Jan 6, 2023
Implementation of trRosetta and trDesign for Pytorch, made into a convenient package
trRosetta - Pytorch (wip) Implementation of trRosetta and trDesign for Pytorch, made into a convenient package
67 Dec 17, 2022
Big Bird: Transformers for Longer Sequences
BigBird, is a sparse-attention based transformer which extends Transformer based models, such as BERT to much longer sequences. Moreover, BigBird comes along with a theoretical understanding of the capabilities of a complete transformer that the sparse model can handle.
457 Dec 23, 2022
Implementation of Geometric Vector Perceptron, a simple circuit for 3d rotation equivariance for learning over large biomolecules, in Pytorch. Idea proposed and accepted at ICLR 2021
Geometric Vector Perceptron Implementation of Geometric Vector Perceptron, a simple circuit with 3d rotation equivariance for learning over large biom
59 Nov 24, 2022
Compute distance between sequences. 30+ algorithms, pure python implementation, common interface, optional external libs usage.
TextDistance TextDistance -- python library for comparing distance between two or more sequences by many algorithms. Features: 30+ algorithms Pure pyt
3k Jan 2, 2023
Yet Another Sequence Encoder - Encode sequences to vector of vector in python !
Yase Yet Another Sequence Encoder - encode sequences to vector of vectors in python ! Why Yase ? Yase enable you to encode any sequence which can be r
12 Aug 19, 2021