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  "Package": "RmzTabM",
  "Title": "R API for the mzTab-M Reference Implementation",
  "Version": "0.97.19",
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  "Description": "The RmzTabM package provides functions to read and write\nfiles in the HUPO-PSI mzTab-M file format. This package\nrepresents the reference implementation for mzTab-M\nimport/export for R. Core, low level functions allow to format\nand parse the individual sections of the mzTab-M format. These\nfunctions are designed to be re-used by other packages\nimplementing import/export of results in mzTab-M.",
  "Encoding": "UTF-8",
  "License": "Artistic-2.0",
  "URL": "https://github.com/RforMassSpectrometry/RmzTabM",
  "BugReports": "https://github.com/RforMassSpectrometry/RmzTabM/issues",
  "SystemRequirements": "pandoc, quarto",
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  "Repository": "https://rformassspectrometry.r-universe.dev",
  "Date/Publication": "2026-07-22 07:25:53 UTC",
  "RemoteUrl": "https://github.com/rformassspectrometry/RmzTabM",
  "RemoteRef": "HEAD",
  "RemoteSha": "f0f345d73640c18f854b4452121931e81193045c",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-07-22 08:08:43 UTC",
    "User": "root"
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  "Author": "Nils Hoffmann [ctb] (ORCID: <https://orcid.org/0000-0002-6540-6875>),\nSteffen Neumann [ctb] (ORCID: <https://orcid.org/0000-0002-7899-7192>),\nJohannes Rainer [aut, cre] (ORCID:\n<https://orcid.org/0000-0002-6977-7147>),\nPhilippine Louail [aut] (ORCID:\n<https://orcid.org/0009-0007-5429-6846>, fnd: European Union\nHORIZON-MSCA-2021 project Grant No. 101073062: HUMAN – Harmonising\nand Unifying Blood Metabolic Analysis Networks),\nGabriele Tomè [aut] (ORCID: <https://orcid.org/0000-0002-3976-6068>,\nfnd: MetaRbolomics4Galaxy project (CUP: D53C25001030003) co-funded\nby the Autonomous Province of Bolzano under the Joint Projects\nSouth Tyrol–Germany 2025 program.)",
  "Maintainer": "Johannes Rainer <johannes.rainer@eurac.edu>",
  "_user": "rformassspectrometry",
  "_type": "src",
  "_file": "RmzTabM_0.97.19.tar.gz",
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  "_published": "2026-07-22T08:14:25.505Z",
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  "_exports": [
    "assayCols",
    "getMtdContact",
    "getMtdCv",
    "getMtdDatabase",
    "getMtdField",
    "getMtdInstrument",
    "getMtdProtocol",
    "isCvParameter",
    "makeSummarizedExperimentFromMzTabM",
    "msRunCols",
    "mtd",
    "mtdAssay",
    "mtdDefineStudyVariables",
    "mtdFields",
    "mtdFromSampleData",
    "mtdMsRun",
    "mtdSample",
    "mtdSkeleton",
    "mtdSort",
    "mtdStudyVariables",
    "mtdToSampleData",
    "MzTabM",
    "parseCvParameter",
    "readMzTabM",
    "sampleCols",
    "setMtdContact",
    "setMtdCv",
    "setMtdDatabase",
    "setMtdField",
    "setMtdInstrument",
    "setMtdProtocol",
    "sme",
    "smeCreate",
    "smeIdConfidenceMeasure",
    "smeSort",
    "smeSpectraRefValidator",
    "smf",
    "smfCols",
    "smfCreate",
    "smfSort",
    "sml",
    "smlAddStudyVariableColumns",
    "smlCreate",
    "smlSort",
    "writeMzTabM"
  ],
  "_datasets": [
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      "name": "se",
      "title": "Quantified LC-MS preprocessing result test data from Metabonaut",
      "object": "se",
      "file": "se.RData",
      "class": [
        "SummarizedExperiment"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    }
  ],
  "_help": [
    {
      "page": "MTD-export",
      "title": "Defining and exporting the mzTab-M metadata table",
      "topics": [
        "MTD-export"
      ]
    },
    {
      "page": "mtdAssay",
      "title": "mzTab-M _assay_ metadata information",
      "topics": [
        "mtdAssay"
      ]
    },
    {
      "page": "mtdFields",
      "title": "Prepare and format information for the mzTab-M metadata section",
      "topics": [
        "mtdFields"
      ]
    },
    {
      "page": "mtdFromSampleData",
      "title": "Create the mzTab-M MTD content from a sample data frame",
      "topics": [
        "assayCols",
        "msRunCols",
        "mtdFromSampleData",
        "sampleCols"
      ]
    },
    {
      "page": "mtdMsRun",
      "title": "msTab-M _ms_run_ metadata fields",
      "topics": [
        "mtdMsRun"
      ]
    },
    {
      "page": "mtdSample",
      "title": "msTab-M _sample_ metadata information",
      "topics": [
        "mtdSample"
      ]
    },
    {
      "page": "mtdSkeleton",
      "title": "Create a skeleton MTD section with general information",
      "topics": [
        "mtdSkeleton"
      ]
    },
    {
      "page": "mtdSort",
      "title": "Sort rows in a MTD matrix to match the expected order",
      "topics": [
        "mtdSort"
      ]
    },
    {
      "page": "mtdStudyVariables",
      "title": "mzTab-M _study variables_ metadata information",
      "topics": [
        "mtdDefineStudyVariables",
        "mtdStudyVariables"
      ]
    },
    {
      "page": "mtdToSampleData",
      "title": "Reconstruct a sample data frame from mzTab-M MTD content",
      "topics": [
        "mtdToSampleData"
      ]
    },
    {
      "page": "MzTabM",
      "title": "mzTab-M data container",
      "topics": [
        "mtd",
        "mtd,MzTabM-method",
        "MzTabM",
        "MzTabM,dfmatrix-method",
        "MzTabM,missing-method",
        "MzTabM-class",
        "sme",
        "sme,MzTabM-method",
        "smf",
        "smf,MzTabM-method",
        "sml",
        "sml,MzTabM-method"
      ]
    },
    {
      "page": "MzTabM-export",
      "title": "Export a mzTab-M 2.1 file",
      "topics": [
        "MzTabM-export",
        "writeMzTabM"
      ]
    },
    {
      "page": "MzTabM-import",
      "title": "Import a mzTab-M 2.1 file",
      "topics": [
        "MzTabM-import",
        "readMzTabM"
      ]
    },
    {
      "page": "parseCvParameter",
      "title": "Utility functions for CV parameters",
      "concept": [
        "mzTab-M utility functions"
      ],
      "topics": [
        "isCvParameter",
        "parseCvParameter"
      ]
    },
    {
      "page": "se",
      "title": "Quantified LC-MS preprocessing result test data from Metabonaut",
      "topics": [
        "se"
      ]
    },
    {
      "page": "setMtdContact",
      "title": "Add or Update contact Metadata of an mzTab-M MTD section",
      "topics": [
        "getMtdContact",
        "setMtdContact",
        "setMtdContact,dfmatrix-method",
        "setMtdContact,MzTabM-method"
      ]
    },
    {
      "page": "setMtdCv",
      "title": "Add or Update Controlled Vocabularies (CV) Metadata of an mzTab-M MTD section",
      "topics": [
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        "setMtdCv",
        "setMtdCv,dfmatrix-method",
        "setMtdCv,MzTabM-method"
      ]
    },
    {
      "page": "setMtdDatabase",
      "title": "Add or Update Database Metadata of an mzTab-M MTD section",
      "topics": [
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        "setMtdDatabase",
        "setMtdDatabase,dfmatrix-method",
        "setMtdDatabase,MzTabM-method"
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    },
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      "page": "setMtdField",
      "title": "Add or Update a Metadata Field of an mzTab-M MTD section",
      "topics": [
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        "setMtdField",
        "setMtdField,dfmatrix-method",
        "setMtdField,MzTabM-method"
      ]
    },
    {
      "page": "setMtdInstrument",
      "title": "Add, update or get instrument metadata of an mzTab-M MTD section",
      "topics": [
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        "setMtdInstrument",
        "setMtdInstrument,dfmatrix-method",
        "setMtdInstrument,MzTabM-method"
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      "topics": [
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        "MzTabM,SummarizedExperiment-method",
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      "filename": "rmztabm-api.html",
      "title": "The R API for the mzTab-M File Format",
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      "headings": [
        "Introduction",
        "Installation",
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        "R mzTab-M API",
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        "Get the Metabonaut result object",
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