An algorithm for solving protein sequence alignment which aims to find optimum matching between two amino acid sequences
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Updated
Feb 18, 2021 - Java
An algorithm for solving protein sequence alignment which aims to find optimum matching between two amino acid sequences
FASTA file processor is a CMake Project written in modern C++ and designed to take advantage of the new C++17 standard. It is designed to read and write FASTA files quickly and efficiently, and it can be used as a library or a stand-alone program. The project comes with a set of tests using the Catch2 framework.
Adaptation of the official PyTorch implementation for Transformer Interpretability Beyond Attention Visualization, a novel method to visualize classifications by Transformer based networks [CVPR 2021] to ESM.
from protein alignments to deep learning preparatory.
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
Scripts to run benchmarks of BLAST and PLAST on a supercomputer
Finds sequences of nucleotide triplets, called codons, that specifies which amino acid will be added next during protein synthesis.
An open source and cross platform application to fix, and find problems in protein FASTA sequence files.
Map the peptides to its corresponding protein sequence and locate the modification sites
Repo for running command line-based HH-suite3 software in Jupyter environment provided via Binder.
Code and dataset for paper "Proteasomal cleavage prediction: state-of-the-art and future directions"
a ruby gem for protein alignments. index the protein alignments, extract the regions of interest, extract the locus, extract the alignments
It contains some scripts for working with biological sequences. It can translate DNA to proteins, extract specific fragment from alignment.
Adding interpretability features to Facebook AI Research's ESM-IF Inverse Folding Model
Projects developed under the Bioinformatics college chair during the 2020/2021 school year
identify the location of a protein within a cell using only its amino acid sequence
A collection of projects in bioinformatics.
The repository contains the codes to predict protein crotonylation, existing methods like DEEPKCR and performance values of existing approaches also have been provided here.
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