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ZIFA

ZIFA

ZIFA (Zero Inflated Factor Analysis) is a tool to reduce dimensionality in single-cell RNA-seq data. The ZIFA algorithm also has models for characteristics of dropouts.

Topic

RNA-seq; Gene expression

Details

  • Operation: RNA-Seq analysis
  • Software interface: Command-line user interface
  • Language: Python
  • Operating system: Microsoft Windows, Mac OS X, Linux
  • License: The MIT License
  • Cost: Free
  • Version name: -
  • Maturity: Mature
  • Credit: Rhodes Trust, UK Medical Research Council, Wellcome Trust, John Fell Oxford University Press Research Fund, Li Ka Shing Foundation.
  • Contact: Emma Pierson emma.pierson _at_ st-annes.ox.ac.uk
  • Collection: -

Publications

Pierson E, Yau C "ZIFA: Dimensionality reduction for zero-inflated single-cell gene expression analysis." Genome Biol. 2015 Nov 2;16:241. https://doi.org/10.1186/s13059-015-0805-z
PMID: 26527291
PMCID: PMC4630968


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