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BamView: Viewing Mapped Read Alignment Data in the Context of the Reference Sequence

Overview
Journal Bioinformatics
Publisher Oxford University Press
Specialty Biology
Date 2010 Jan 15
PMID 20071372
Citations 42
Authors
Tim Carver
Ulrike Bohme
Thomas D Otto
Julian Parkhill
Matthew Berriman
Affiliations
Soon will be listed here.
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/

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