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SCOPIT

SCOPIT

SCOPIT (Single-Cell One-sided Probability Interactive Tool) is a tool to calculate sample sizes for single-cell RNA-seq (scRNA-seq) data experiments. The SCOPIT algorithm uses a multinomial distribution, and a separate R package, pmultinom, contains the scripts for the computations.

Topic

RNA-Seq

Details

  • Operation: RNA-Seq analysis; Statistical calculation
  • Software interface: Command-line user interface; Web user interface
  • Language: R
  • Operating system: Microsoft Windows, Mac OS X, Linux
  • License: AGPL v3
  • Cost: Free
  • Version name: -
  • Credit: American Cancer Society, Chan-Zuckerberg Initiative Human Cell Atlas Seed Network Grant, CPRIT Single Cell Genomics Center Grant, Susan Komen, AACR Basic Cancer Research Fellowships, NLM fellowship.
  • Contact: Nicholas E. Navin nnavin _at_ mdanderson.org
  • Collection: -

Publications

Davis A, Gao R, Navin NE "SCOPIT: sample size calculations for single-cell sequencing experiments." BMC Bioinformatics. 2019 Nov 12;20(1):566. https://doi.org/10.1186/s12859-019-3167-9
PMID: 31718533
PMCID: PMC6852764


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