SV2 specifications

Information


Unique identifier OMICS_16722
Name SV2
Alternative name support-vector structural-variant genotyper
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data A BAM file with supplementary alignment tags (SA), a SNV VCF file with allelic depth, and either a BED or VCF file of deletions and tandem duplications to be genotyped.
Input format BAM, VCF, BED
Output data The genotypes and annotations for genes, repeats, and other befitting statistics for SV analysis.
Output format VCF
Operating system Unix/Linux
Programming languages Python
License MIT License
Computer skills Advanced
Version 1.4.3.4
Stability Stable
Maintained Yes

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Additional information


https://github.com/dantaki/SV2/wiki/tutorial

SV2 article

SV2 institution(s)
Beyster Center for Genomics of Psychiatric Diseases, University of California San Diego, La Jolla, CA, USA; Department of Psychiatry, University of California San Diego, La Jolla, CA, USA; Department of Cellular and Molecular Medicine and Pediatrics, University of California San Diego, La Jolla, CA, USA; Biomedical Sciences Graduate Program, University of California San Diego, La Jolla, CA, USA
SV2 funding source(s)
Supported by grants from the National Institutes of Health (NIH grants HG007497 and MH076431) and by a T32 training grant from the NIH (GM008666).

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