SOAPsnv statistics

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Citations per year

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Tool usage distribution map

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Associated diseases

Associated diseases

SOAPsnv specifications

Information


Unique identifier OMICS_04229
Name SOAPsnv
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Version 2.0
Stability Stable
Requirements
gcc compiler
Maintained Yes

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Maintainer


  • person_outline SOAP3 <>

SOAPsnv in publications

 (2)
PMCID: 5852328
PMID: 29552334
DOI: 10.1016/j.csbj.2018.01.003

[…] tumor and distinguish somatic variants from germline and loss of heterozygosity (loh) variants using the matched normal sample., the heuristic approaches, adopted by varscan2, qsnp, shimmer, radia, soapsnv, and vardict , , , , , , identify potential variants whose supporting reads meet certain thresholds and then apply statistical tests or ad hoc rules to isolate somatic variants. for example, […]

PMCID: 3896667
PMID: 24405831
DOI: 10.1186/1755-8794-7-2

[…] of the mutations, copy number alterations, and structure variations., alignments to the reference genome with opened gaps were performed using bwa (http://bio-bwa.sourceforge.net/bwa.shtml), and soapsnv [] was used to query snvs from tumors against matched normal tissues. 3.40-8.63% of total snvs were detected in dbsnp (dbsnp132). these known germline snps were excluded from downstream […]


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SOAPsnv institution(s)
Beijing Genomics Institute, Shenzhen, China

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