DeepVariant statistics

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Citations per year

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Popular tool citations

chevron_left SNP detection Bioinformatics workflows SNV detection chevron_right
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Tool usage distribution map

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Associated diseases

Associated diseases

DeepVariant specifications

Information


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
Requirements
Boost Graph Library, CLIF, GNU Parallel, htslib, samtools, numpy, scipy, SSW Library, TensorFlow, Slim
Maintained Yes

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Documentation


Maintainer


  • person_outline Mark DePrist <>

Additional information


http://www.frontlinegenomics.com/news/17141/google-releases-deepvariant-ai-open-source/

Publications for DeepVariant

DeepVariant in publications

 (2)
PMCID: 5938574
PMID: 29618526
DOI: 10.1098/rsif.2017.0387

[…] 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 […]

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 […]


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

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