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garnett
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garnett

garnett is a tool for annotation of cell type in single-cell RNA-seq (scRNA-seq) data. The garnett algorithm uses an interpretable, hierarchical markup language of cell type-specific genes.



garnett

garnett is a tool for annotation of cell type in single-cell RNA-seq (scRNA-seq) data. The garnett algorithm uses an interpretable, hierarchical markup language of cell type-specific genes.

Topic

RNA-seq

Details

  • Operation: RNA-Seq analysis
  • Software interface: Command-line user interface; Library
  • Language: R
  • Operating system: Linux; Mac OS X; Microsoft Windows
  • License: The MIT licence
    • Cost: Free
  • Version name: 0.1.14
  • Credit: National Institute of Health (NIH).
  • Contact: Hannah Pliner hpliner _at_ uw.edu
  • Collection: -

Publications

Pliner HA, Shendure J, Trapnell C "Supervised classification enables rapid annotation of cell atlases" Nat Methods. 2019 Oct;16(10):983-986. https://doi.org/10.1038/s41592-019-0535-3
PMID: 31501545
PMCID: PMC6791524


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