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

Versioning


No version available

Maintainer


  • person_outline SOAP3

SOAPsnv citation

library_books

A review of somatic single nucleotide variant calling algorithms for next generation sequencing data

2018
Comput Struct Biotechnol J
PMCID: 5852328
PMID: 29552334
DOI: 10.1016/j.csbj.2018.01.003

[…] noise level of general NGS data and expected to filter out low-level artifacts. Next, the potential SNV sites are analyzed in the matched normal to filter out non-somatic variants. VarScan2, Shimmer, SOAPsnv, and VarDict apply Fisher's exact test on the 2 × 2 contingency table of read counts (reference vs. non-reference and tumor vs. normal). A small p-value indicates that non-reference reads are […]

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

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