Journal Article

F-Seq: a feature density estimator for high-throughput sequence tags

Alan P. Boyle, Justin Guinney, Gregory E. Crawford and Terrence S. Furey

in Bioinformatics

Volume 24, issue 21, pages 2537-2538
Published in print November 2008 | ISSN: 1367-4803
Published online September 2008 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btn480

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Summary: Tag sequencing using high-throughput sequencing technologies are now regularly employed to identify specific sequence features, such as transcription factor binding sites (ChIP-seq) or regions of open chromatin (DNase-seq). To intuitively summarize and display individual sequence data as an accurate and interpretable signal, we developed F-Seq, a software package that generates a continuous tag sequence density estimation allowing identification of biologically meaningful sites whose output can be displayed directly in the UCSC Genome Browser.

Availability: The software is written in the Java language and is available on all major computing platforms for download at http://www.genome.duke.edu/labs/furey/software/fseq.

Contact: terry.furey@duke.edu

Journal Article.  1364 words.  Illustrated.

Subjects: Bioinformatics and Computational Biology

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