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svviz specifications

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Unique identifier OMICS_09702
Name svviz
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data A reference genome and structural variants
Output format SVG,PNG,PDF
Biological technology Illumina, Oxford Nanopore
Operating system Unix/Linux, Mac OS
Programming languages Python
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Noah Spies

Publication for svviz

svviz citation

library_books

Prioritisation of structural variant calls in cancer genomes

2017
PeerJ
PMCID: 5382922
PMID: 28392986
DOI: 10.7717/peerj.3166

[…] to highlight the breakpoints and affected exons in a putative fusion transcript is an area of active development with no one tool currently being the industry standard. we initially identified svviz (), one of the earlier tools, to examine the validated fusion variants highlighted by prioritisation. the fgfr3-tacc3 tandem duplication (rt4 cell line) is shown in ; tacc3 is not captured […]


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svviz institution(s)
Department of Genetics, Stanford University, Stanford, CA, USA; Department of Pathology, Stanford University, Stanford, CA, USA; Genome Scale Measurements Group, National Institute of Standards and Technology, Stanford, CA, USA; Gaithersburg, MD, USA
svviz funding source(s)
Supported by a National Research Council Postdoctoral Fellowship.

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