Shannon I. Steinfadt

Research Interests - SWAMP and High-Performance Bioinformatics Computing

Sequence Alignment and HPC

High performance data-parallel associative computing is used to approach a common bioinformatics application: sequence alignment.

SWAMP = Smith-Waterman using Associative Massive Parallelism

SWAMP+ = SWAMP with extended search capabilities for discovering in-depth knowledge and semi-automation of finding multiple local alignments for motifs and more. 

The current focus is to return the top k optimum alignments instead of a single, best local alignment based on the rigorous Smith-Waterman algorithm using several properties of the massively parallel ASsociative Computing model, or ASC.

Please visit the SWAMP Alignment Resource Page at for more information, and changing links as applications are built for bio & alignment users! 


©2006-2008 Shannon I. Steinfadt