Sequence alignment tools

Python implementation of Striped Smith-Waterman Algorithm

Pairwise Sequence Aligment Tool (PSAT) a simple application to align sequences.

A header-only templated C++17-library for fast and versatile sequence alignment computations.

Global and Local Sequence Alignment

Implement parallel Smith Waterman algorithm on CUDA

implementation and visualizations for sequence alignment algorithms

Web App para alinhamento de sequências de DNA

Applications that compute pairwise alignments of two biological sequences

An R script that calculates a similarity matrix for a list of protein sequences with the aid of Bleakley-Yamanishi Normalized Smith-Waterman Similarity Score.

Smith Waterman algorithm Java implementation

Implementation of Sequence Alignment using Needleman-Wunsch and Smith-Waterman algorithms with fixed scoring values.

Smith-Waterman alignment implementation

This program determines the optimal alignment of two nucleotide sequences using the Smith–Waterman algorithm. Optimality, of course, is determined by the values of the gap penalty g and the weight matrix (that lists all of the s(ai , bj )). Finally the program outputs the optimal similarity score along with the optimal alignment.

AlnSeq runs a c coded Smith Waterman, Needleman Wunsch, and an Hirschberg.

I developed a R package implementing the Smith-Waterman algorithm. The package building, check and installation works smoothly with 0 error (see log_file). BiocCheck results show 1 error because I’m not registered at the support site, 1 warning because BiocViews terms are invalid. Check the log_file for more details.

💻 Project for the course of Algorithms for Bioinformtics

🧬 Implementation of the Smith-Waterman algorithm for aligning amino acid sequences.