SNVSniffer statistics

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SNVSniffer specifications

Information


Unique identifier OMICS_17088
Name SNVSniffer
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data A reference genome file.
Input format BAM
Operating system Unix/Linux
Programming languages C++
License Apache License version 2.0
Computer skills Advanced
Version 2.0.4
Stability Beta
Maintained Yes

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Versioning


No version available

Maintainer


  • person_outline Liu Yongchao

Publication for SNVSniffer

SNVSniffer citations

 (2)
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

[…] will include the gene expression data in an integrated analysis to further reduce false positives., joint genotype analysis, adopted by somaticsniper, fasd-somatic, samtools, jointsnvmix2, virmid, snvsniffer, seurat, and cavemanĀ , , , , , , , , assumes diploidy in both tumor and normal and evaluates the likelihood of the joint genotypes. variant calling becomes a natural corollary […]

library_books

Comprehensive benchmarking of SNV callers for highly admixed tumor data

2017
PLoS One
PMCID: 5636151
PMID: 29020110
DOI: 10.1371/journal.pone.0186175

[…] gene panels. in these experiments, we observed an increased senstivity compared to the exome data, particularly for increasing levels of contamination of normal tissue (). interestingly, mutect2 and snvsniffer were much less sensitive on paired panel data than on exome data. moreover, precision was above 90% for almost all callers and admixture levels (). ebcall reached high sensitivity […]


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SNVSniffer institution(s)
School of Computational Science & Engineering, Georgia Institute of Technology, Atlanta, GA, USA; Translational Oncology, Johannes Gutenberg University Medical Center gGmbH Mainz, Mainz, Germany; Institute of Computer Science, Johannes Gutenberg University Mainz, Mainz, Germany.
SNVSniffer funding source(s)
Supported by the Centre for Computational Science Mainz (CSM).

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