G-BLASTN is a GPU-accelerated nucleotide alignment tool based on the widely used NCBI-BLAST.

memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping

Find and visualize rearrangements in DNA sequences

This bartender version could handle arbitrary length of barcode

toolkit for file system virtualisation of random access compressed FASTA, FAI, DICT & TWOBIT files

A simple yet powerful sequence clustering tool.

This project implements substring search and sequence alignment algorithms for molecular sequences analysis. It includes the Rabin-Karp algorithm for substring search and the Needleman-Wunsch algorithm for sequence alignment. Developed in C++17, the code follows Google Style and includes a Makefile for building and testing the program.

High performance tools for analyzing coronavirus genome

Basic seed-and-extend DNA sequence read aligner

Multiple Objective Optimization work for optimizing aptamer binding to new targets done in collaboration with Chris Knight and Josh Knowles

Proof Of Concept for simple Base-2 binary to Base-4 DNA-code representation conversion

Looper is an ultrafast DNA tandem repeat identification tool which works on basic arithmetic rules.

Approximate pattern matching with Counting Filter on q-grams using SSE instructions (CF2)

Archival Compression for hiGh-Throughput sequeNcing data

BioGenie is a complete bioinformatics command line tool, written in C++.

An algorithm for finding SNPs of a long read compared to a reference genome

Segmenting DNA sequence into ‘words’,https://arxiv.org/pdf/1202.2518.pdf

BME3160 Bioinformatics Lecture examples in C++ and Perl

In Interactive 3D DNA Simulator designed to visualize genetic sequences in a spatial, intuitive way. The interface allows full control over the view - rotate the structure with the mouse, zoom in and out, and observe it from any perspective

Challenges of the Advanced Algorithms and Parallel Computing course