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ACTIONet

ACTIONet

ACTIONet is a tool for the analysis of cell state landscape in single-cell RNA-seq (scRNA-seq) data. The ACTIONet algorithm uses multilevel matrix decomposition and network reconstruction to detect patterns.

Topic

RNA-Seq; Gene expression

Details

  • Operation: Dimensionality reduction; Standardisation and normalisation
  • Software interface: Command-line user interface
  • Language: R, C++
  • Operating system: Linux; Mac OS X; Microsoft Windows
  • License: GNU Lesser General Public License v>=2
  • Cost: Free
  • Version name: 1.0
  • Credit: -
  • Contact: Shahin Mohammadi mohammadi _at_ broadinstitute.org
  • Collection: -

Publications

Mohammadi Shahin, Davila-Velderrain Jose, Kellis Manolis "A multiresolution framework to characterize single-cell state landscapes" bioRxiv https://doi.org/10.1101/746339


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