Single-file Numba-accelerated Python implementation of Gotoh affine gap penalty extensions for the Needleman–Wunsch and Smith-Waterman algorithms
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Updated
May 23, 2024 - Python
Single-file Numba-accelerated Python implementation of Gotoh affine gap penalty extensions for the Needleman–Wunsch and Smith-Waterman algorithms
programs and scripts, mainly python, for analyses related to nucleic or protein sequences
Pipeline for searching and aligning contact maps for proteins, then running DeepFri's GCN.
Multimodal Pretraining for Unsupervised Protein Representation Learning
A Python API for the RCSB Protein Data Bank (PDB)
from protein alignments to deep learning preparatory.
PyMod 3 - sequence similarity searches, multiple sequence/structure alignments, and homology modeling within PyMOL.
Protein Language Model (pLM) Powered Protein Crotonylation (Kcr) Modified Site Predictor
stitching coding regions from exon alignments for the protein to genome alignments.
plotting and summary information tools for the mRNA proteome to genome alignments.
plotting and summary tools for the protein to genome alignments for genome annotations.
intergenic region analyzer from protein alignments to draft genomes.
protein-annotator python package for analyzing protein alignments to draft genomes.
Inference code for PoET: A generative model of protein families as sequences-of-sequences
Transformer Based Language Model for Peptide Property Prediction
Analysis of FASTA ,Protein,DNA sequence.
Generation of protein sequences and evolutionary alignments via discrete diffusion models
Neural Networks for Protein Sequence Alignment
Protein Language Model-based Protein Thermophilicity Prediction
Property Prediction for Intrinsically Disordered Proteins (IDPs) using Language Model
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