{
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  "Package": "MetCirc",
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  "Title": "Navigating mass spectral similarity in high-resolution MS/MS\nmetabolomics data metabolomics data",
  "Version": "1.42.0",
  "Date": "2024-10-16",
  "Authors@R": "c(person(given = \"Thomas\", family = \"Naake\",\nemail = \"thomasnaake@googlemail.com\",\nrole = c(\"aut\",\"cre\")),\nperson(given = \"Johannes\", family = \"Rainer\",\nemail = \"johannes.rainer@eurac.edu\",\nrole = \"ctb\"),\nperson(given = \"Emmanuel\", family = \"Gaquerel\",\nemail = \"emmanuel.gaquerel@ibmp-cnrs.unistra.fr\", role = \"aut\"))",
  "Author": "Thomas Naake <thomasnaake@googlemail.com>, Johannes Rainer\n<johannes.rainer@eurac.edu> and Emmanuel Gaquerel\n<emmanuel.gaquerel@ibmp-cnrs.unistra.fr>",
  "Maintainer": "Thomas Naake <thomasnaake@googlemail.com>",
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  "biocViews": "ShinyApps, Metabolomics, MassSpectrometry, Visualization",
  "Description": "MetCirc comprises a workflow to interactively explore\nhigh-resolution MS/MS metabolomics data. MetCirc uses the\nSpectra object infrastructure defined in the package Spectra\nthat stores MS/MS spectra. MetCirc offers functionality to\ncalculate similarity between precursors based on the normalised\ndot product, neutral losses or user-defined functions and\nvisualise similarities in a circular layout. Within the\ninteractive framework the user can annotate MS/MS features\nbased on their similarity to (known) related MS/MS features.",
  "License": "GPL (>= 3)",
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  "Repository": "https://bioc-release.r-universe.dev",
  "Date/Publication": "2026-04-28 12:43:42 UTC",
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      "title": "Example data for 'MetCirc': 'compartmentTissue'",
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      "file": "idMSMStissueproject.RData",
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      "title": "Calculate polar coordinates from cartesian coordinates",
      "topics": [
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    {
      "page": "circosLegend",
      "title": "Plot a legend for circos plot",
      "topics": [
        "circosLegend"
      ]
    },
    {
      "page": "compartmentTissue",
      "title": "Example data for `MetCirc`: `compartmentTissue`",
      "topics": [
        "compartmentTissue"
      ]
    },
    {
      "page": "convertExampleDF",
      "title": "Example data for `MetCirc`: convertExampleDF",
      "topics": [
        "convertExampleDF"
      ]
    },
    {
      "page": "convertMsp2Spectra",
      "title": "Convert MSP data frame into object of class 'Spectra'",
      "topics": [
        "convertMsp2Spectra"
      ]
    },
    {
      "page": "createLink0df",
      "title": "Create a link matrix",
      "topics": [
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    },
    {
      "page": "createLinkDf",
      "title": "Create a data frame which contains features to link (indices)",
      "topics": [
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    },
    {
      "page": "cutLinkDf",
      "title": "Create a cut data frame with information on links",
      "topics": [
        "cutLinkDf"
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    },
    {
      "page": "getLinkDfIndices",
      "title": "Get indices in 'linkDf' of feature",
      "topics": [
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    },
    {
      "page": "highlight",
      "title": "Add links and highlight sectors",
      "topics": [
        "highlight"
      ]
    },
    {
      "page": "minFragCart2Polar",
      "title": "Calculate the nearest feature in polar coordinates given cartesian coordinates",
      "topics": [
        "minFragCart2Polar"
      ]
    },
    {
      "page": "msp2spectra",
      "title": "Example data for `MetCirc`: `msp2spectra`",
      "topics": [
        "msp2spectra"
      ]
    },
    {
      "page": "neutralloss",
      "title": "Calculate similarity based on neutral losses",
      "topics": [
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    },
    {
      "page": "orderSimilarityMatrix",
      "title": "Order columns and rows of a similarity matrix according to m/z, retention time and clustering",
      "topics": [
        "orderSimilarityMatrix"
      ]
    },
    {
      "page": "plotCircos",
      "title": "Circular plot to visualize similarity",
      "topics": [
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      "page": "plotSpectra",
      "title": "Plot pair-wise spectra",
      "topics": [
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      "page": "printInformationSelect",
      "title": "Display information on connected features of selected features",
      "topics": [
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      "topics": [
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      "topics": [
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      "page": "replayPlotAdd",
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      "topics": [
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      "title": "Example data for `MetCirc`: `sd01_outputXCMS`",
      "topics": [
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      "title": "Example data for `MetCirc`: sd02_deconvoluted",
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