Less-wrong single-file Numba-accelerated Python implementation of Gotoh affine gap penalty extensions for the Needleman–Wunsch, Smith-Waterman, and Levenshtein algorithms for sequence alignment
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Updated
Jun 4, 2024 - Python
Less-wrong single-file Numba-accelerated Python implementation of Gotoh affine gap penalty extensions for the Needleman–Wunsch, Smith-Waterman, and Levenshtein algorithms for sequence alignment
Pipeline for searching and aligning contact maps for proteins, then running DeepFri's GCN.
Lbster: Language models for Biological Sequence Transformation and Evolutionary Representation
Official repository for discrete Walk-Jump Sampling (dWJS)
A tool to generate protein sequences and properties
PyMod 3 - sequence similarity searches, multiple sequence/structure alignments, and homology modeling within PyMOL.
A Python API for the RCSB Protein Data Bank (PDB)
Revolutionizing DNA analysis and making it accessible to all through innovative AI-powered analysis and interpretive tools.
Neural Networks for Protein Sequence Alignment
Sequence based PPI prediction algorithm is developed using Xgboost. Around 73,000 positive and negative interacting protein pairs were extracted from Pan’s PPI dataset
Progressive Transfer Learning for Peptide-Protein-Specific Interaction Profiling based on Interpretable Biological Sequence Pragmatic Analysis
programs and scripts, mainly python, for analyses related to nucleic or protein sequences
📖🔬☕ BioJava is an open-source project dedicated to providing a Java library for processing biological data.
Multimodal Pretraining for Unsupervised Protein Representation Learning
Using data from PDBePISA with the convenience of Python and Jupyter.
from protein alignments to deep learning preparatory.
Directed Evolution in Silico
a ruby gem for protein alignments. index the protein alignments, extract the regions of interest, extract the locus, extract the alignments
Implement, train, tune, and evaluate a transformer model for antibody classification with this step-by-step code.
💊 Molecular informatics toolkit with integration of bioinformatics and cheminformatics tools for drug discovery
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