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      "page": "MetNet-package",
      "title": "Inferring metabolic networks from untargeted high-resolution mass spectrometry data",
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        "MetNet"
      ]
    },
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      "page": "dot-AdjacencyMatrix",
      "title": "Create S4 class AdjacencyMatrix",
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      "page": "dot-assays_have_identical_colnames_rownames",
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      "page": "addSpectralSimilarity",
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      "page": "addToList",
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        "AdjacencyMatrix"
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      "title": "Create an `AdjacencyMatrix` object containing assays of adjacency matrices from statistical methods",
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    },
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      "page": "structural",
      "title": "Create adjacency matrix based on m/z (molecular weight) difference",
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    },
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      "title": "Threshold the statistical adjacency or spectral similarity matrices",
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      "source": "MetNet.Rmd",
      "filename": "MetNet.html",
      "title": "MetNet: Inferring metabolic networks from untargeted high-resolution mass spectrometry data",
      "author": "Thomas Naake",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Introduction",
        "Questions and bugs",
        "Prepare the environment and load the data",
        "Creating the structural adjacency",
        "Advanced topic: Creating a directed structural graph",
        "Advanced topic: Refining the structural adjacency (optional)",
        "Adding spectral similarity to the structural adjacency",
        "Creating the statistical adjacency",
        "Creating weighted adjacency matrices using statistical",
        "Creating an unweighted adjacency matrix using threshold",
        "Combining the structural and statistical matrix",
        "Visualization and further analyses",
        "Appendix",
        "Session information",
        "Transformations",
        "References"
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      "created": "2019-11-07 15:55:49",
      "modified": "2025-10-23 08:55:59",
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