SiNVICT statistics

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Citations per year

Number of citations per year for the bioinformatics software tool SiNVICT
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Tool usage distribution map

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SiNVICT specifications

Information


Unique identifier OMICS_12625
Name SiNVICT
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input format FASTQ, BAM
Operating system Unix/Linux
Programming languages C++
Computer skills Advanced
Version 1.0
Stability Stable
Requirements
g++, Boost
Maintained Yes

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Versioning


No version available

Documentation


Maintainer


  • person_outline S. Cenk Sahilp

Publication for SiNVICT

SiNVICT 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

[…] nput (). In addition, several algorithms are dedicated to perform single-sample variant calling. These algorithms include SNVMix2, shearwater, SPLINTER, SNVer, OutLyzer, Pisces, ISOWN, SomVarIUS, and SiNVICT , , , , , , , , and fall into two categories.SNVMix2, Shearwater, SPLINTER, SNVer, OutLyzer, and Pisces report all variants without distinguishing somatic and germline. SNVMix2’s, like JointS […]

library_books

Detailed simulation of cancer exome sequencing data reveals differences and common limitations of variant callers

2017
BMC Bioinformatics
PMCID: 5209852
PMID: 28049408
DOI: 10.1186/s12859-016-1417-7

[…] We compared the nine somatic variant calling programs deepSNV [], Genome Analysis Toolkit (GATK) HaplotypeCaller (HP) [–], GATK UnifiedGenotyper (UG) [–], JointSNVMix2 [], MuTect [], SAMtools [], SiNVICT [], SomaticSniper [], and VarScan2 []. Figure illustrates the workflow for the comparison in a flowchart. A heterogeneous cancer sample was simulated based on a real renal cell carcinoma samp […]


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SiNVICT institution(s)
School of Computing Science, Simon Fraser University, Burnaby, BC, Canada; MADD-Gen Graduate Program, Simon Fraser University, Burnaby, BC, Canada; School of Informatics and Computing, Indiana University, Bloomington, IN, USA; Vancouver Prostate Centre, Vancouver, BC, Canada; Department of Urologic Sciences, University of British Columbia, Vancouver, BC, Canada; School of Informatics and Computing, Indiana University, Bloomington, IN, USA
SiNVICT funding source(s)
Supported by NSERC Create MADD-Gen Training programme, NSERC Discovery Frontiers grant on ‘Cancer Genome Collaboratory’, Genome Canada and Canadian Cancer Society Research Institute Innovation grants, Terry Fox Research Institute New Frontiers Program (grant no. TFF116129), Canadian Cancer Society (grant no. 702837) and Prostate Cancer Canada (grant no. D2014-13) and in part by the Movember Foundation.

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