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Bioinformatics Vol. 18 no. 10 2002
Pages 1398-1399
© 2002 Oxford University Press

Applications Note

Genquire: genome annotation browser/editor

M.D. Wilkinson 1,*, D. Block 1, and W.L. Crosby 1

1 Plant Biotechnology Institute, National Research Council Canada, Saskatoon, Saskatchwan, S7N 0W9, Canada

Received on February 18, 2002 ; revised on March 27, 2002

Summary: We present a software package, Genquire, that allows visualization, querying, hand editing, and de novo markup of complete or partially annotated genomes. The system is written in Perl/Tk and uses, where possible, existing BioPerl data models and methods for representation and manipulation of the sequence and annotation objects. An adaptor API is provided to allow Genquire to display a wide range of databases and flat files, and a plugins API provides an interface to other sequence analysis software.

Availability: Genquire v3.03 is open-source software. The code is available for download and/or contribution at http://www.bioinformatics.org/Genquire

Contact: mwilkinson{at}gene.pbi.nrc.ca

* To whom correspondence should be addressed.

Present address: Genomics Institute of the Novartis Research Foundation, 10675 John Jay Hopkins Drive, San Diego, CA 92121, USA


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