AnnTools protocols

AnnTools specifications

Information


Unique identifier OMICS_00166
Name AnnTools
Software type Package/Module
Interface Command line interface
Restrictions to use None
Output data Variant calls
Output format VCF
Operating system Unix/Linux, Mac OS
Programming languages Python
Database management system MySQL
License BSD 2-clause “Simplified” License
Computer skills Advanced
Version 1.1
Stability Stable
Maintained Yes

Taxon


  • Primates
    • Homo sapiens

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Maintainer


  • person_outline Vladimir Makarov <>

Publication for AnnTools

AnnTools IN pipeline

2017
PMCID: 5540655
PMID: 28808687
DOI: 10.1212/NXG.0000000000000177

[…] insertions/deletions (indels) were called using the gatk unified genotyper tool, where calls were filtered based on mapping quality (q30 or higher) and depth of coverage (d10 or higher). last, the anntools kit was used for annotation of the resulting calls,24 and picard was used to conduct exomes' statistics (picard.sourceforge.net/)., genomic variations observed as common mutations (frequency […]

AnnTools institution(s)
The Seaver Autism Center for Research and Treatment, Mount Sinai School of Medicine, New York, NY, USA; Department of Psychiatry, Mount Sinai School of Medicine, New York, NY, USA; Levy Library, Mount Sinai School of Medicine, New York, NY, USA; Department of Applied Mathematics and Statistics, Stony Brook University, Stony Brook, NY, USA; Department of Neuroscience, Mount Sinai School of Medicine, New York, NY, USA; Department of Genetics and Genomic Sciences, Mount Sinai School of Medicine, New York, NY, USA; The Friedman Brain Institute, Mount Sinai School of Medicine, New York, NY, USA
AnnTools funding source(s)
Supported by the Seaver Foundation; Simons Foundation and NIMH (grants MH089025 and MH093725).

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