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CellBender
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CellBender

CellBender is a tool to eliminate experimental artifacts in droplet-based single-cell RNA-seq (scRNA-seq) assays.



CellBender

CellBender is a tool to eliminate experimental artifacts in droplet-based single-cell RNA-seq (scRNA-seq) assays.

Topic

Gene expression; RNA-Seq

Details

  • Operation: Differential gene expression analysis; RNA-Seq analysis
  • Software interface: Command-line user interface
  • Language: Python
  • Operating system: Linux; Mac OS X
  • License: BSD 3-Clause "New" or "Revised" License
    • Cost: Free
  • Version name: 2
    • Maturity: Stable
  • Credit: Broad-Bayer Precision Cardiology Lab (PCL), SPARC: Development of Production-Grade Computational Methods for Single-Cell Genomics from the Broad Institute.
  • Contact: Mehrtash Babadi mehrtash _at_ broadinstitute.org
  • Collection: -

Publications

Stephen J. Fleming, John C. Marioni, Mehrtash Babadi "CellBender remove-background: a deep generative model for unsupervised removal of background noise from scRNA-seq datasets" biorxiv.org https://doi.org/10.1101/791699


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