2016-04-27T11:42:17 n3050

RNASeqBrowser: A genome browser for strand specific RNAseq reads

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Strand specific RNAseq data is now more common in RNAseq projects. The most widely used visualization tool is the UCSC genome browser that introduced the custom track concept that enabled researchers to simultaneously visualize gene expression at a particular locus from multiple experiments. This paper introduces a visualization tool (RNASeqBrowser) that incorporates and extends the functionality of the UCSC genome browser. For example, RNASeqBrowser simultaneously displays read coverage, SNPs, InDels and raw read tracks with other BED and wiggle tracks -- all being dynamically built from the BAM file. Paired reads are also connected in the browser to enable easier identification of novel exon/intron borders and chimaeric transcripts. Strand specific RNAseq data is also supported by RNASeqBrowser that displays reads above (positive strand transcript) or below (negative strand transcripts) a central line.

Cite this collection

An, Jiyuan. (2015) RNASeqBrowser: A genome browser for strand specific RNAseq reads. Queensland University of Technology. https://researchdatafinder.qut.edu.au/display/n3050

Related information

Software summary page, SourceForge http://sourceforge.net/projects/rnaseqbrowser/

Licence

GNU General Public License (GPL)
http://www.gnu.org/licenses/gpl.html

Connections

Has association with
Dr Jiyuan An  (Researcher)

Contacts

Other

Date record created:
2015-03-11T11:10:36
Date record modified:
2016-04-27T11:42:17
Record status:
Published - Open Access