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M3Drop

M3Drop

M3Drop is a tool to meld dropout patterns in single-cell RNA-seq (scRNA-seq) data.

Topic

RNA-Seq; Gene expression

Details

  • Operation: Gene expression analysis; Modelling and simulation
  • Software interface: Command-line user interface; Library
  • Language: R
  • Operating system: Linux; Mac OS X; Microsoft Windows
  • License: GNU General Public License v>=2
  • Cost: Free
  • Version name: 1.12.0
  • Maturity: Stable
  • Credit: Wellcome Trust Sanger Institute, Cambridge, UK.
  • Contact: Tallulah Andrews tallulandrews _at_ gmail.com
  • Collection: Bioconductor

Publications

Rostom R, Svensson V, Teichmann SA, Kar G "Computational approaches for interpreting scRNA-seq data." FEBS Lett. 2017; 591(15):2213-2225 https://doi.org/10.1002/1873-3468.12684
PMID: 28524227
PMCID: PMC5575496


Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J1, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M "Orchestrating high-throughput genomic analysis with Bioconductor." Nat Methods. 2015 Feb;12(2):115-21. https://doi.org/10.1038/nmeth.3252
PMID: 25633503
PMCID: PMC4509590


Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JY, Zhang J. "Bioconductor: open software development for computational biology and bioinformatics." Genome Biol. 2004;5(10):R80. Epub 2004 Sep 15. https://doi.org/10.1186/gb-2004-5-10-r80
PMID: 15461798
PMCID: PMC545600


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