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    {
      "name": "phylo_tree_16S",
      "title": "The phylogenetic tree of 16S example data",
      "object": "phylo_tree_16S",
      "class": [
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      "table": false,
      "tojson": false
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    {
      "name": "prok_func_FAPROTAX",
      "title": "Customized FAPROTAX trait database",
      "object": "prok_func_FAPROTAX",
      "class": [
        "list"
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      "table": false,
      "tojson": true
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    {
      "name": "prok_func_NJC19_list",
      "title": "The NJC19 database",
      "object": "prok_func_NJC19_list",
      "class": [
        "list"
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      "table": false,
      "tojson": true
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    {
      "name": "sample_info_16S",
      "title": "The sample information of 16S example data",
      "object": "sample_info_16S",
      "class": [
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      "fields": [
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        "Group",
        "Type",
        "Saline"
      ],
      "rows": 90,
      "table": true,
      "tojson": true
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    {
      "name": "sample_info_ITS",
      "title": "The sample information of ITS example data",
      "object": "sample_info_ITS",
      "class": [
        "data.frame"
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      "fields": [
        "Assay.Type",
        "AvgSpotLen",
        "Bases",
        "BioProject",
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        "Center.Name",
        "Collection_Date",
        "Consent",
        "Cultivar",
        "DATASTORE.filetype",
        "DATASTORE.provider",
        "DATASTORE.region",
        "Experiment",
        "geo_loc_name_country",
        "geo_loc_name_country_continent",
        "geo_loc_name",
        "Host",
        "Instrument",
        "isolation_source",
        "lat_lon",
        "Library.Name",
        "LibraryLayout",
        "LibrarySelection",
        "LibrarySource",
        "Organism",
        "Platform",
        "plot",
        "ReleaseDate",
        "Sample.Name",
        "sample_type",
        "SRA.Study"
      ],
      "rows": 309,
      "table": true,
      "tojson": true
    },
    {
      "name": "soil_metab",
      "title": "Microtable object of non-targeted metabolome data from bulk soil and maize rhizosphere soil in an agricultural field experiment with crop rotation and fertilization treatments (DOI: 10.1007/s11104-024-06847-9).",
      "object": "soil_metab",
      "class": [
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        "R6"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "soil_microb",
      "title": "Microtable object of prokaryotic sequencing data from soil and maize in an agricultural field experiment with crop rotation and fertilization treatments (DOI: 10.1007/s11104-024-06847-9).",
      "object": "soil_microb",
      "class": [
        "microtable",
        "R6"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    },
    {
      "name": "Tax4Fun2_KEGG",
      "title": "The KEGG data files used in the trans_func class",
      "object": "Tax4Fun2_KEGG",
      "class": [
        "list"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    },
    {
      "name": "taxonomy_table_16S",
      "title": "The taxonomic information of 16S example data",
      "object": "taxonomy_table_16S",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Kingdom",
        "Phylum",
        "Class",
        "Order",
        "Family",
        "Genus",
        "Species"
      ],
      "rows": 13628,
      "table": true,
      "tojson": true
    },
    {
      "name": "taxonomy_table_ITS",
      "title": "The taxonomic information of ITS example data",
      "object": "taxonomy_table_ITS",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Kingdom",
        "Phylum",
        "Class",
        "Order",
        "Family",
        "Genus",
        "Species"
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      "rows": 323,
      "table": true,
      "tojson": true
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  "_help": [
    {
      "page": "clone",
      "title": "Copy an R6 class object",
      "topics": [
        "clone"
      ]
    },
    {
      "page": "dataset",
      "title": "The dataset structured with microtable class for the demonstration of examples",
      "topics": [
        "dataset"
      ]
    },
    {
      "page": "dropallfactors",
      "title": "Remove all factors in a data frame",
      "topics": [
        "dropallfactors"
      ]
    },
    {
      "page": "env_data_16S",
      "title": "The environmental factors for the 16S example data",
      "topics": [
        "env_data_16S"
      ]
    },
    {
      "page": "fungi_func_FungalTraits",
      "title": "The FungalTraits database for fungi trait prediction",
      "topics": [
        "fungi_func_FungalTraits"
      ]
    },
    {
      "page": "fungi_func_FUNGuild",
      "title": "The FUNGuild database for fungi trait prediction",
      "topics": [
        "fungi_func_FUNGuild"
      ]
    },
    {
      "page": "microeco",
      "title": "Introduction to microeco package (https://github.com/ChiLiubio/microeco)",
      "topics": [
        "microeco"
      ]
    },
    {
      "page": "microtable",
      "title": "Create 'microtable' object to store and manage all the basic data.",
      "topics": [
        "microtable"
      ]
    },
    {
      "page": "otu_table_16S",
      "title": "The OTU table of the 16S example data",
      "topics": [
        "otu_table_16S"
      ]
    },
    {
      "page": "otu_table_ITS",
      "title": "The OTU table of the ITS example data",
      "topics": [
        "otu_table_ITS"
      ]
    },
    {
      "page": "phylo_tree_16S",
      "title": "The phylogenetic tree of 16S example data",
      "topics": [
        "phylo_tree_16S"
      ]
    },
    {
      "page": "prok_func_FAPROTAX",
      "title": "Customized FAPROTAX trait database",
      "topics": [
        "prok_func_FAPROTAX"
      ]
    },
    {
      "page": "prok_func_NJC19_list",
      "title": "The NJC19 database",
      "topics": [
        "prok_func_NJC19_list"
      ]
    },
    {
      "page": "sample_info_16S",
      "title": "The sample information of 16S example data",
      "topics": [
        "sample_info_16S"
      ]
    },
    {
      "page": "sample_info_ITS",
      "title": "The sample information of ITS example data",
      "topics": [
        "sample_info_ITS"
      ]
    },
    {
      "page": "soil_metab",
      "title": "Microtable object of non-targeted metabolome data from bulk soil and maize rhizosphere soil in an agricultural field experiment with crop rotation and fertilization treatments (DOI: 10.1007/s11104-024-06847-9).",
      "topics": [
        "soil_metab"
      ]
    },
    {
      "page": "soil_microb",
      "title": "Microtable object of prokaryotic sequencing data from soil and maize in an agricultural field experiment with crop rotation and fertilization treatments (DOI: 10.1007/s11104-024-06847-9).",
      "topics": [
        "soil_microb"
      ]
    },
    {
      "page": "Tax4Fun2_KEGG",
      "title": "The KEGG data files used in the trans_func class",
      "topics": [
        "Tax4Fun2_KEGG"
      ]
    },
    {
      "page": "taxonomy_table_16S",
      "title": "The taxonomic information of 16S example data",
      "topics": [
        "taxonomy_table_16S"
      ]
    },
    {
      "page": "taxonomy_table_ITS",
      "title": "The taxonomic information of ITS example data",
      "topics": [
        "taxonomy_table_ITS"
      ]
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    {
      "page": "tidy_taxonomy",
      "title": "Clean up the taxonomic table to make taxonomic assignments consistent.",
      "topics": [
        "tidy_taxonomy"
      ]
    },
    {
      "page": "trans_abund",
      "title": "Create 'trans_abund' object for taxonomic abundance visualization.",
      "topics": [
        "trans_abund"
      ]
    },
    {
      "page": "trans_alpha",
      "title": "Create 'trans_alpha' object for alpha diversity statistics and visualization.",
      "topics": [
        "trans_alpha"
      ]
    },
    {
      "page": "trans_beta",
      "title": "Create 'trans_beta' object for beta-diversity analysis",
      "topics": [
        "trans_beta"
      ]
    },
    {
      "page": "trans_classifier",
      "title": "Create 'trans_classifier' object for machine-learning-based model prediction.",
      "topics": [
        "trans_classifier"
      ]
    },
    {
      "page": "trans_diff",
      "title": "Create 'trans_diff' object for the differential analysis on the taxonomic abundance",
      "topics": [
        "trans_diff"
      ]
    },
    {
      "page": "trans_env",
      "title": "Create 'trans_env' object to analyze the association between environmental factor and microbial community.",
      "topics": [
        "trans_env"
      ]
    },
    {
      "page": "trans_func",
      "title": "Create 'trans_func' object for functional prediction.",
      "topics": [
        "trans_func"
      ]
    },
    {
      "page": "trans_metab",
      "title": "Create 'trans_metab' object for metabolite analysis.",
      "topics": [
        "trans_metab"
      ]
    },
    {
      "page": "trans_network",
      "title": "Create 'trans_network' object for network analysis.",
      "topics": [
        "trans_network"
      ]
    },
    {
      "page": "trans_norm",
      "title": "Feature abundance normalization/transformation.",
      "topics": [
        "trans_norm"
      ]
    },
    {
      "page": "trans_nullmodel",
      "title": "Create 'trans_nullmodel' object for null model related analysis.",
      "topics": [
        "trans_nullmodel"
      ]
    },
    {
      "page": "trans_phylo",
      "title": "trans_phylo class",
      "topics": [
        "trans_phylo"
      ]
    },
    {
      "page": "trans_venn",
      "title": "Create 'trans_venn' object for the Venn diagram, petal plot and UpSet plot.",
      "topics": [
        "trans_venn"
      ]
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  "_nocasepkg": "microeco",
  "_universes": [
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