DeepVariant statistics

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Citations per year

Number of citations per year for the bioinformatics software tool DeepVariant

Tool usage distribution map

This map represents all the scientific publications referring to DeepVariant per scientific context
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Associated diseases


Popular tool citations

chevron_left SNP detection SNV detection Bioinformatics workflows chevron_right
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DeepVariant specifications


Unique identifier OMICS_25027
Name DeepVariant
Software type Pipeline/Workflow
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C++, Python
License BSD 3-clause “New” or “Revised” License
Computer skills Advanced
Version 0.7.0
Stability Stable
Boost Graph Library, CLIF, GNU Parallel, htslib, samtools, numpy, scipy, SSW Library, TensorFlow, Slim
Maintained Yes




No version available



  • person_outline Mark DePrist

Additional information

Publications for DeepVariant

DeepVariant citations


Opportunities and obstacles for deep learning in biology and medicine

PMCID: 5938574
PMID: 29618526
DOI: 10.1098/rsif.2017.0387

[…] ited by how well we understand and can model the factors that contribute to noise. Recently, two groups have applied deep learning to construct data-driven unbiased noise models. One of these models, DeepVariant, leverages Inception, a neural network trained for image classification by Google Brain, by encoding reads around a candidate SNP as a 221 × 100 bitmap image, where each column is a nucleo […]


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

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

[…] trained model can be easily applied to other datasets with consistent performance. DNN-based algorithm has been demonstrated by the winner of PrecisionFDA Truth Challenge (germline variant calling), DeepVariant , and applied to somatic variant calling .Variant callers are also evolving to accommodate new sequencing and library construction technologies. Traditional variant callers rely on base qu […]

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DeepVariant institution(s)
Verily Life Sciences, Mountain View, CA, USA; Google Inc., Mountain View, CA, USA

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