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  • Run Gene Pattern (GenePattern) from R

    Simple question, but one I have struggled with due to weak R skills.

    I have set up a local instance of GenePattern with no issues i.e. the GUI works fine. In addition, I can follow this tutorial that links R and Gene Pattern with no problems:



    My problem arises when I go off and try to run other modules with my own code. Would someone be willing to share some example R code that can call a GenePattern module? I just can't find any other examples (specific or generic) on the web that will help me teach myself.

    Thanks.

    -Brian Muchmore

  • #2
    This question has been answered on Biostars
    https://www.biostars.org/p/134218/
    Barbara Hill
    Software Test Engineer
    Cancer Informatics Development
    Broad Institute of Harvard and MIT
    Cambridge, MA
    USA

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