Detecting somatic point mutations in cancer genome sequencing data: a comparison of mutation callers

Table 1 Tools for detecting somatic single nucleotide variants (sSNVs) from next generation sequencing (NGS) data

Tool	Version	URL	Remark	Date^a	Ref.
EBCall	2	https://github.com/friend1ws/EBCall	Uses an empirical Bayesian model to call sSNVs	Mar. 2013	[14]
JointSNVMix	0.8(b2)	http://compbio.bccrc.ca	Joint analysis of tumor/normal pairs	Jan. 2012	[9]
MuTect	1.1.4	http://www.broadinstitute.org/cancer/cga/mutect	Sensitive detection of low allelic-fraction sSNVs	Feb. 2013	[13]
SomaticSniper	1.0.2	http://genome.wustl.edu/software/somaticsniper	High computational efficiency	Dec. 2011	[10]
Strelka	0.4.10.2	ftp://strelka@ftp.illumina.com/	Clean outputs through stringent filtering	May 2012	[11]
VarScan 2	2.3.5	http://varscan.sourceforge.net/	Sensitive detection of high-quality sSNVs	Feb. 2012	[12]

ISSN: 1756-994X