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BAMMSC

BAMMSC

A tool for clustering single-cell RNA-seq data. The BAMMSC algorithm uses a Bayesian hierarchical Dirichlet multinomial mixture model and can characterize variabilities of genes, cell types, and individuals. It also accounts for batch effects, variable read lengths, and technical bias, within multiple individual samples. Besides, it combines DIMMSC in analyses of individuals.

Topic

RNA-seq; Transcriptomics

Details

  • Operation: RNA-Seq analysis
  • Software interface: Command-line user interface; Library
  • Language: R;C++
  • Operating system: Microsoft Windows, Mac OS X, Linux
  • License: GNU General Public License v>=2
  • Cost: Free
  • Version name: 1.0.0
  • Credit: The National Institutes of Health (NIH), Children’s Hospital of Pittsburgh.
  • Contact: Zhe Sun zhs31 _at_ pitt.edu | Li Chen li.chen _at_ auburn.edu
  • Collection: -

Publications

Sun Z, Chen L, Xin H, Jiang Y, Huang Q, Cillo AR, Tabib T, Kolls JK, Bruno TC, Lafyatis R, Vignali DAA, Chen K, Ding Y, Hu M, Chen W "A Bayesian mixture model for clustering droplet-based single-cell transcriptomic data from population studies." Nat Commun. 2019 Apr 9;10(1):1649. https://doi.org/10.1038/s41467-019-09639-3
PMID: 30967541
PMCID: PMC6456731


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