{
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  "Package": "file2meco",
  "Type": "Package",
  "Title": "Transform Files to 'microtable' Object with 'microeco' Package",
  "Version": "1.0.0",
  "Authors@R": "c(person(\"Chi\", \"Liu\", role = c(\"aut\", \"cre\"), email = \"liuchi0426@126.com\"))",
  "Author": "Chi Liu [aut, cre]",
  "Maintainer": "Chi Liu <liuchi0426@126.com>",
  "Description": "Transform output files of some tools to the 'microtable'\nobject of 'microtable' class in 'microeco' package. The\n'microtable' class is the basic class in 'microeco' package and\nis necessary for the downstream microbial community data\nanalysis.",
  "URL": "https://github.com/ChiLiubio/file2meco",
  "License": "GPL-3",
  "LazyData": "true",
  "Encoding": "UTF-8",
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  "Repository": "https://chiliubio.r-universe.dev",
  "Date/Publication": "2026-05-29 05:58:32 UTC",
  "RemoteUrl": "https://github.com/chiliubio/file2meco",
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    "email": "liuchi0426@126.com",
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      "role": "Imports"
    },
    {
      "package": "Matrix",
      "role": "Imports"
    },
    {
      "package": "Biostrings",
      "role": "Suggests"
    },
    {
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    },
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      "package": "phyloseq",
      "role": "Suggests"
    },
    {
      "package": "readxl",
      "role": "Suggests"
    },
    {
      "package": "SummarizedExperiment",
      "role": "Suggests"
    },
    {
      "package": "TreeSummarizedExperiment",
      "role": "Suggests"
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  "_usedby": 0,
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    "name": "Chi Liu",
    "description": "microbial ecology; R language"
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    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/file2meco"
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  "_assets": [
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    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/file2meco.html",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
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  "_realowner": "chiliubio",
  "_cranurl": true,
  "_releases": [
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      "date": "2021-09-09"
    },
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      "date": "2021-11-16"
    },
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      "date": "2022-01-06"
    },
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      "date": "2022-03-23"
    },
    {
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    },
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    },
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    },
    {
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      "date": "2022-08-07"
    },
    {
      "version": "0.5.0",
      "date": "2022-11-15"
    },
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    },
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    },
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      "date": "2024-10-31"
    },
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      "date": "2024-11-19"
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    "humann2meco",
    "meco2phyloseq",
    "meco2tse",
    "metacyc_pathway_website",
    "mpa2meco",
    "ncyc2meco",
    "phyloseq2meco",
    "qiime1meco",
    "qiime2meco",
    "tse2meco",
    "vs2meco"
  ],
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      "name": "CHOCOPhlAn_taxonomy",
      "title": "The CHOCOPhlAn_taxonomy data",
      "object": "CHOCOPhlAn_taxonomy",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Kingdom",
        "Phylum",
        "Class",
        "Order",
        "Family",
        "Genus"
      ],
      "rows": 4984,
      "table": true,
      "tojson": true
    },
    {
      "name": "MetaCyc_pathway_map",
      "title": "The MetaCyc_pathway_map data",
      "object": "MetaCyc_pathway_map",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Superclass1",
        "Superclass2",
        "pathway"
      ],
      "rows": 3241,
      "table": true,
      "tojson": true
    },
    {
      "name": "ncyc_map",
      "title": "The ncyc_map data",
      "object": "ncyc_map",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Pathway",
        "Gene",
        "Description"
      ],
      "rows": 70,
      "table": true,
      "tojson": true
    },
    {
      "name": "pcyc_map",
      "title": "The pcyc_map data",
      "object": "pcyc_map",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Pathway",
        "Gene",
        "KO.number",
        "Description"
      ],
      "rows": 140,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "check_match_table",
      "title": "Replace the names use match table",
      "topics": [
        "check_match_table"
      ]
    },
    {
      "page": "check_sample_table",
      "title": "Read sample table",
      "topics": [
        "check_sample_table"
      ]
    },
    {
      "page": "CHOCOPhlAn_taxonomy",
      "title": "The CHOCOPhlAn_taxonomy data",
      "topics": [
        "CHOCOPhlAn_taxonomy"
      ]
    },
    {
      "page": "file2meco",
      "title": "Introduction to file2meco package (https://github.com/ChiLiubio/file2meco)",
      "topics": [
        "file2meco"
      ]
    },
    {
      "page": "humann2meco",
      "title": "Transform 'HUMAnN' metagenomic results to 'microtable' object.",
      "topics": [
        "humann2meco"
      ]
    },
    {
      "page": "meco2phyloseq",
      "title": "Transform 'microtable' object of 'microeco' package to the 'phyloseq' object of 'phyloseq' package <doi:10.1371/journal.pone.0061217>.",
      "topics": [
        "meco2phyloseq"
      ]
    },
    {
      "page": "meco2tse",
      "title": "Transform 'microtable' object of 'microeco' package to the 'TreeSummarizedExperiment' object of 'TreeSummarizedExperiment' package <doi:10.12688/f1000research.26669.2>.",
      "topics": [
        "meco2tse"
      ]
    },
    {
      "page": "merge_microtable",
      "title": "Merge multiple microtable objects into one.",
      "topics": [
        "merge_microtable"
      ]
    },
    {
      "page": "MetaCyc_pathway_map",
      "title": "The MetaCyc_pathway_map data",
      "topics": [
        "MetaCyc_pathway_map"
      ]
    },
    {
      "page": "metacyc_pathway_website",
      "title": "Get the website for a 'MetaCyc' pathway name",
      "topics": [
        "metacyc_pathway_website"
      ]
    },
    {
      "page": "mpa2meco",
      "title": "Transform metagenomic classification results of 'mpa' format to 'microtable' object.",
      "topics": [
        "mpa2meco"
      ]
    },
    {
      "page": "ncyc_map",
      "title": "The ncyc_map data",
      "topics": [
        "ncyc_map"
      ]
    },
    {
      "page": "ncyc2meco",
      "title": "Transform 'NCycDB' or 'PCycDB' metagenomic abundance to 'microtable' object.",
      "topics": [
        "ncyc2meco"
      ]
    },
    {
      "page": "pcyc_map",
      "title": "The pcyc_map data",
      "topics": [
        "pcyc_map"
      ]
    },
    {
      "page": "phyloseq2meco",
      "title": "Transform the 'phyloseq' object of 'phyloseq' package to 'microtable' object of 'microeco' package.",
      "topics": [
        "phyloseq2meco"
      ]
    },
    {
      "page": "qiime1meco",
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      "topics": [
        "qiime1meco"
      ]
    },
    {
      "page": "qiime2meco",
      "title": "Transform 'QIIME2' results to 'microtable' object.",
      "topics": [
        "qiime2meco"
      ]
    },
    {
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      "title": "Transform the 'TreeSummarizedExperiment' object to 'microtable' object of 'microeco' package.",
      "topics": [
        "tse2meco"
      ]
    },
    {
      "page": "vs2meco",
      "title": "Transform viromescan results to 'microtable' object.",
      "topics": [
        "vs2meco"
      ]
    }
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