Abstract

Abstract Summary: BamView is an interactive Java application for visualizing the large amounts of data stored for sequence reads which are aligned against a reference genome sequence. It supports the BAM (Binary Alignment/Map) format. It can be used in a number of contexts including SNP calling and structural annotation. BamView has also been integrated into Artemis so that the reads can be viewed in the context of the nucleotide sequence and genomic features. Availability: BamView and Artemis are freely available (under a GPL licence) for download (for MacOSX, UNIX and Windows) at: http://bamview.sourceforge.net/ Contact: artemis@sanger.ac.uk

Keywords

AnnotationUnixComputer scienceSequence (biology)Context (archaeology)Reference genomeJavaDownloadSoftwareGenomeComputational biologyProgramming languageBiologyWorld Wide WebArtificial intelligenceGeneticsGene

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Publication Info

Year
2010
Type
article
Volume
26
Issue
5
Pages
676-677
Citations
73
Access
Closed

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Tim Carver, Ulrike Böhme, Thomas D. Otto et al. (2010). BamView: viewing mapped read alignment data in the context of the reference sequence. Bioinformatics , 26 (5) , 676-677. https://doi.org/10.1093/bioinformatics/btq010

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DOI
10.1093/bioinformatics/btq010