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CancerInSilico

CancerInSilico

CancerInSilico is an R tool to compute mathematical models of tumor progression. CancerInSilico also generates expression data from the modeling results.

Topic

RNA-seq; Oncology

Details

  • Operation: Modelling and simulation
  • Software interface: Command-line user interface; Library
  • Language: R/C++
  • Operating system: Linux; Mac OS X
  • License: GNU GPL v2
  • Cost: Free
  • Version name: 2.6.0
  • Maturity: Stable
  • Credit: -
  • Contact: Thomas D. Sherman tomsherman159 _at_ gmail.com | Elana J. Fertig ejfertig _at_ jhmi.edu
  • Collection: Bioconductor

Publications

Thomas D. Sherman, Raymond Cheng, Elana J. Fertig "An R interface for computational modeling of tumor progression" bioconductor.org https://doi.org/10.18129/B9.bioc.CancerInSilico


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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