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      "title": "Consensus matrix computation",
      "topics": [
        "consmx"
      ]
    },
    {
      "page": "ED1",
      "title": "Compute Euclidean distance matrix by rows",
      "topics": [
        "ED1"
      ]
    },
    {
      "page": "ED2",
      "title": "Compute Euclidean distance matrix by columns",
      "topics": [
        "ED2"
      ]
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    {
      "page": "estkTW",
      "title": "Estimate the optimal k for k-means clustering",
      "topics": [
        "estkTW"
      ]
    },
    {
      "page": "get_auroc",
      "title": "Calculate the area under the ROC curve for a given gene.",
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        "get_auroc"
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    },
    {
      "page": "get_biolgy",
      "title": "Wrapper for calculating biological properties",
      "topics": [
        "get_biolgy"
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    },
    {
      "page": "get_de_genes",
      "title": "Find differentially expressed genes",
      "topics": [
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    },
    {
      "page": "get_marker_genes",
      "title": "Calculate marker genes",
      "topics": [
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    },
    {
      "page": "get_outl_cells",
      "title": "Find cell outliers in each cluster.",
      "topics": [
        "get_outl_cells"
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    },
    {
      "page": "get_processed_dataset",
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      "topics": [
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    },
    {
      "page": "markers_for_heatmap",
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      "topics": [
        "markers_for_heatmap"
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    },
    {
      "page": "norm_laplacian",
      "title": "Graph Laplacian calculation",
      "topics": [
        "norm_laplacian"
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    },
    {
      "page": "organise_de_genes",
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      "topics": [
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    },
    {
      "page": "organise_marker_genes",
      "title": "Get marker genes from an object of 'SingleCellExperiment' class",
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    },
    {
      "page": "prepare_for_svm",
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      "topics": [
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    {
      "page": "reindex_clusters",
      "title": "Reindex cluster labels in ascending order",
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    {
      "page": "sc3",
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        "sc3.SingleCellExperiment"
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    },
    {
      "page": "sc3_calc_biology",
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      "topics": [
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        "sc3_calc_biology,",
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      "page": "sc3_estimate_k",
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    {
      "page": "tmult",
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      "page": "transformation",
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    {
      "page": "yan",
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      "source": "SC3.Rmd",
      "filename": "SC3.html",
      "title": "SC3 package manual",
      "author": "Vladimir Kiselev",
      "engine": "knitr::rmarkdown",
      "headings": [
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        "SingleCellExperiment, QC and scater",
        "Quick Start",
        "SC3 Input",
        "Run SC3",
        "colData",
        "rowData",
        "Number of Сells",
        "Plot Functions",
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      "created": "2017-10-04 20:05:16",
      "modified": "2023-05-15 17:34:22",
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