DeepVariant statistics

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Citations per year

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

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

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Popular tool citations

chevron_left SNP detection SNV detection Bioinformatics workflows chevron_right
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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

Download


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Versioning


No version available

Documentation


Maintainer


  • person_outline Mark DePrist

Additional information


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

Publications for DeepVariant

DeepVariant citations

 (2)
library_books

Opportunities and obstacles for deep learning in biology and medicine

2018
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 […]

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

[…] 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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