tPatternHunter: gapped, fast and sensitive translated homology search

Authors:
Derek Kisman;Ming Li;Bin Ma;Li Wang
Affiliations:
Bioinformatics Solutions Inc. 145 Columbia St West, Waterloo, Ontario, Canada N2L 3L2;School of Computer Science, University of Waterloo Ontario, Canada N2L 3G1;Department of Computer Science, University of Western Ontario London, Ontario Canada N6A 5B7;Department of Computer Science, University of Western Ontario London, Ontario Canada N6A 5B7
Venue:
Bioinformatics
Year:
2005

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Abstract

Summary: New ideas, spaced seeds and gapped alignment before 6-frame translation are implemented for translated homology search in tPatternHunter. The new software compares favorably with tBLASTx. Availability: The software is free to academics at http://www.bioinformaticssolutions.com/downloads/ph-academic/ Contact: bma@csd.uwo.ca