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Bioinformatics. 2008 Nov 1;24(21):2537-8. doi: 10.1093/bioinformatics/btn480. Epub 2008 Sep 10.

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

Author information

1
Institute for Genome Sciences and Policy, Duke University, Durham, NC 27708, USA.

Abstract

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.

PMID:
18784119
PMCID:
PMC2732284
DOI:
10.1093/bioinformatics/btn480
[Indexed for MEDLINE]
Free PMC Article

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