Dataset Information

BreakPoint Surveyor: a pipeline for structural variant visualization.

ABSTRACT:

Summary

BreakPoint Surveyor (BPS) is a computational pipeline for the discovery, characterization, and visualization of complex genomic rearrangements, such as viral genome integration, in paired-end sequence data. BPS facilitates interpretation of structural variants by merging structural variant breakpoint predictions, gene exon structure, read depth, and RNA-sequencing expression into a single comprehensive figure.

Availability and implementation

Source code and sample data freely available for download at https://github.com/ding-lab/BreakPointSurveyor, distributed under the GNU GPLv3 license, implemented in R, Python and BASH scripts, and supported on Unix/Linux/OS X operating systems.

Contact

lding@wustl.edu.

Supplementary information

Supplementary data are available at Bioinformatics online.

SUBMITTER: Wyczalkowski MA

PROVIDER: S-EPMC5870665 | biostudies-literature | 2017 Oct

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

BreakPoint Surveyor: a pipeline for structural variant visualization.

Wyczalkowski Matthew A MA Wylie Kristine M KM Cao Song S McLellan Michael D MD Flynn Jennifer J Huang Mo M Ye Kai K Fan Xian X Chen Ken K Wendl Michael C MC Ding Li L

Bioinformatics (Oxford, England) 20171001 19

<h4>Summary</h4>BreakPoint Surveyor (BPS) is a computational pipeline for the discovery, characterization, and visualization of complex genomic rearrangements, such as viral genome integration, in paired-end sequence data. BPS facilitates interpretation of structural variants by merging structural variant breakpoint predictions, gene exon structure, read depth, and RNA-sequencing expression into a single comprehensive figure.<h4>Availability and implementation</h4>Source code and sample data fre ...[more]

PMID: 28582538

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Dataset Information

BreakPoint Surveyor: a pipeline for structural variant visualization.

Summary

Availability and implementation

Contact

Supplementary information

Publications

BreakPoint Surveyor: a pipeline for structural variant visualization.

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