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  "Title": "Addon to CellNOptR: Fuzzy Logic",
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  "Date": "2013-8-28",
  "Author": "M. Morris, T. Cokelaer",
  "Maintainer": "T. Cokelaer <cokelaer@ebi.ac.uk>",
  "Description": "This package is an extension to CellNOptR.  It contains\nadditional functionality needed to simulate and train a prior\nknowledge network to experimental data using constrained fuzzy\nlogic (cFL, rather than Boolean logic as is the case in\nCellNOptR).  Additionally, this package will contain functions\nto use for the compilation of multiple optimization results\n(either Boolean or cFL).",
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  "_cranurl": false,
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    "interpretDiscreteGA",
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      "page": "CNORfuzzy-package",
      "title": "R version of CNOFuzzy, a Constrained Fuzzy Logic Network Optimisation",
      "topics": [
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        "CNORfuzzy"
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      "title": "CNORfuzzy analysis wrapper",
      "topics": [
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      ]
    },
    {
      "page": "computeScoreFuzzy",
      "title": "Compute Score of a model compared to the data for a given intString.",
      "topics": [
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      ]
    },
    {
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      "title": "Create a list of default parameters",
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