{
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  "Package": "MetaCyto",
  "Type": "Package",
  "Title": "MetaCyto: A package for meta-analysis of cytometry data",
  "Version": "1.35.0",
  "Author": "Zicheng Hu, Chethan Jujjavarapu, Sanchita Bhattacharya, Atul J.\nButte",
  "Maintainer": "Zicheng Hu <zicheng.hu@ucsf.edu>",
  "Description": "This package provides functions for preprocessing,\nautomated gating and meta-analysis of cytometry data. It also\nprovides functions that facilitate the collection of cytometry\ndata from the ImmPort database.",
  "License": "GPL (>= 2)",
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  "Date/Publication": "2026-04-28 12:46:50 UTC",
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    "clustering",
    "statisticalmethod",
    "software",
    "cellbasedassays",
    "preprocessing"
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    "clusterStats",
    "collectData",
    "densityPlot",
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    "filterLabels",
    "findCutoff",
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    "flowSOM.MC",
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    "labelSummary",
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    "plotGA",
    "preprocessing",
    "preprocessing.batch",
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    "searchCluster",
    "searchCluster.batch",
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    {
      "page": "autoCluster.batch",
      "title": "Cluster the preprocessed fcs files from different studies in batch",
      "topics": [
        "autoCluster.batch"
      ]
    },
    {
      "page": "clusterStats",
      "title": "Derive summary statistics for clusters",
      "topics": [
        "clusterStats"
      ]
    },
    {
      "page": "collectData",
      "title": "Collect and combine data from multiple csv files of the same format",
      "topics": [
        "collectData"
      ]
    },
    {
      "page": "densityPlot",
      "title": "Draw density plot for each cell cluster.",
      "topics": [
        "densityPlot"
      ]
    },
    {
      "page": "fcsInfoParser",
      "title": "Organize fcs files in a study from ImmPort into panels",
      "topics": [
        "fcsInfoParser"
      ]
    },
    {
      "page": "filterLabels",
      "title": "Filter cluster labels",
      "topics": [
        "filterLabels"
      ]
    },
    {
      "page": "findCutoff",
      "title": "Find cutoff for a 1D distribution",
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      ]
    },
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      "page": "flowHC",
      "title": "Cluster cytometry data using hierarchical clustering",
      "topics": [
        "flowHC"
      ]
    },
    {
      "page": "flowSOM.MC",
      "title": "Cluster cytometry data using FlowSOM",
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        "flowSOM.MC"
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    },
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      "title": "Perform generalized linear model analysis to estimate effect size.",
      "topics": [
        "glmAnalysis"
      ]
    },
    {
      "page": "labelCluster",
      "title": "Label each cluster as \"+\" or \"-\" or neutral for each marker",
      "topics": [
        "labelCluster"
      ]
    },
    {
      "page": "labelSummary",
      "title": "Make a summary for the labels (cell populations) identified in different cytometry panels.",
      "topics": [
        "labelSummary"
      ]
    },
    {
      "page": "markerFinder",
      "title": "Find markers in a flow frame object",
      "topics": [
        "markerFinder"
      ]
    },
    {
      "page": "metaAnalysis",
      "title": "Performs meta-analysis",
      "topics": [
        "metaAnalysis"
      ]
    },
    {
      "page": "nameUpdator",
      "title": "Used to update marker names",
      "topics": [
        "nameUpdator"
      ]
    },
    {
      "page": "panelSummary",
      "title": "Summarize markers in panels.",
      "topics": [
        "panelSummary"
      ]
    },
    {
      "page": "plotGA",
      "title": "Plot the result from the glmAnalysis function",
      "topics": [
        "plotGA"
      ]
    },
    {
      "page": "preprocessing",
      "title": "Preprocess fcs files from a single experiment",
      "topics": [
        "preprocessing"
      ]
    },
    {
      "page": "preprocessing.batch",
      "title": "Preprocessing fcs files from different studies in batch.",
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        "preprocessing.batch"
      ]
    },
    {
      "page": "sampleInfoParser",
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      ]
    },
    {
      "page": "searchCluster",
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      ]
    },
    {
      "page": "searchCluster.batch",
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      "topics": [
        "searchCluster.batch"
      ]
    },
    {
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      ]
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