Oncotator pipeline

Oncotator specifications

Information


Unique identifier OMICS_00178
Name Oncotator
Software type Package/Module
Interface Command line interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux
Programming languages Python
Computer skills Advanced
Stability Stable
Maintained Yes

Taxon


  • Animals
    • Homo sapiens

Versioning


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Maintainer


  • person_outline Gad Getz <>

Information


Unique identifier OMICS_00178
Name Oncotator
Interface Web user interface
Restrictions to use Academic or non-commercial use
Programming languages Python
Computer skills Basic
Stability Stable
Maintained Yes

Taxon


  • Animals
    • Homo sapiens

Maintainer


  • person_outline Gad Getz <>

Publication for Oncotator

Oncotator citations

 (2)
2016
PMCID: 5013668

[…] and pindel23 were used for the detection of single nucleotide variants and indels with the re-aligned binary sequence alignment/map (bam) files24. the resulting mutation calls were annotated by oncotator11. silent or non-coding mutations were excluded from the analysis along with the known germline tp53 p72r polymorphism. given the difficulties associated with variant calling when using […]

Oncotator institution(s)
Cancer Program, Broad Institute, Cambridge, MA, USA; Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA; Department of Pathology, Harvard Medical School, Boston, MA, USA; Cancer Center and Department of Pathology, Massachusetts General Hospital, Boston, MA, USA

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