{
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  "Package": "anansi",
  "Type": "Package",
  "Title": "Annotation-Based Analysis of Specific Interactions",
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  "Authors@R": "c(\nperson(\"Thomaz\", \"Bastiaanssen\", email = \"thomazbastiaanssen@gmail.com\",\nrole = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0001-6891-734X\")),\nperson(\"Thomas\", \"Quinn\", email = \"contacttomquinn@gmail.com\",\nrole = c(\"aut\"), comment = c(ORCID = \"0000-0003-0286-6329\")),\nperson(\"Giulio\", \"Benedetti\", email = \"giulio.benedetti@utu.fi\",\nrole = c(\"aut\"), comment = c(ORCID = \"0000-0002-8732-7692\")),\nperson(\"Tuomas\", \"Borman\", email = \"tuomas.v.borman@utu.fi\",\nrole = c(\"aut\"), comment = c(ORCID = \"0000-0002-8563-8884\")),\nperson(\"Leo\", \"Lahti\", email = \"leo.lahti@utu.fi\",\nrole = c(\"aut\"), comment = c(ORCID = \"0000-0001-5537-637X\"))\n)",
  "Description": "Studies including both microbiome and metabolomics data\nare becoming more common. Often, it would be helpful to\nintegrate both datasets in order to see if they corroborate\neach others patterns. All vs all association is imprecise and\nlikely to yield spurious associations. This package takes a\nknowledge-based approach to constrain association search space,\nonly considering metabolite-function pairs that have been\nrecorded in a pathway database. This package also provides a\nframework to assess differential association.",
  "License": "GPL-3",
  "Encoding": "UTF-8",
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  "biocViews": "Microbiome, Metabolomics, Regression, Pathways, KEGG",
  "URL": "https://github.com/thomazbastiaanssen/anansi,\nhttps://thomazbastiaanssen.github.io/anansi",
  "BugReports": "https://github.com/thomazbastiaanssen/anansi/issues",
  "VignetteBuilder": "knitr",
  "Roxygen": "list(markdown = TRUE)",
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  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 13:05:41 UTC",
  "RemoteUrl": "https://github.com/bioc/anansi",
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  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-05-27 06:17:01 UTC",
    "User": "root"
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  "Author": "Thomaz Bastiaanssen [aut, cre] (ORCID:\n<https://orcid.org/0000-0001-6891-734X>),\nThomas Quinn [aut] (ORCID: <https://orcid.org/0000-0003-0286-6329>),\nGiulio Benedetti [aut] (ORCID: <https://orcid.org/0000-0002-8732-7692>),\nTuomas Borman [aut] (ORCID: <https://orcid.org/0000-0002-8563-8884>),\nLeo Lahti [aut] (ORCID: <https://orcid.org/0000-0001-5537-637X>)",
  "Maintainer": "Thomaz Bastiaanssen <thomazbastiaanssen@gmail.com>",
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  "_created": "2026-05-27T06:17:01.000Z",
  "_published": "2026-05-27T06:25:29.424Z",
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  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/26494188643",
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    "author": "A Wokaty <andres.wokaty@sph.cuny.edu>",
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    "regression",
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  "_contributors": [
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  "_assets": [
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    "extra/citation.html",
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  "_homeurl": "https://github.com/thomazbastiaanssen/anansi",
  "_realowner": "bioc",
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  "_exports": [
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    "AnansiTale",
    "AnansiWeb",
    "asMAE",
    "asMultiFactor",
    "asTSE",
    "dictionary",
    "getEdgeList",
    "getFeaturePairs",
    "getGraph",
    "kegg_link",
    "krebsDemoWeb",
    "linkBiobakeryMap",
    "metadata",
    "metadata<-",
    "MultiFactor",
    "pairwiseApply",
    "plotAnansi",
    "randomMultiFactor",
    "randomWeb",
    "tableX",
    "tableY",
    "unfactor",
    "weaveKEGG",
    "weaveWeb"
  ],
  "_datasets": [
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      "title": "Use linking data from the KEGG database.",
      "object": "ec2cpd",
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    },
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      "title": "Snippet of the CLR-transformed inferred functional data from the FMT Aging study.",
      "object": "FMT_data",
      "file": "FMT_data.RData",
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      "object": "FMT_data",
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      "object": "FMT_data",
      "file": "FMT_data.RData",
      "class": [
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      "fields": [
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        "Legend"
      ],
      "rows": 36,
      "table": true,
      "tojson": true
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    {
      "name": "krebs",
      "title": "Simplified snippet of the Krebs cycle",
      "object": "krebs",
      "file": "krebs.rda",
      "class": [
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      ],
      "fields": [
        "Enzyme",
        "Metabolite"
      ],
      "rows": 17,
      "table": true,
      "tojson": true
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  ],
  "_help": [
    {
      "page": "anansi-coercion",
      "title": "Coercion functions for anansi",
      "topics": [
        "anansi-coercion",
        "as.data.frame.anansi::AnansiWeb",
        "as.list.anansi::AnansiWeb",
        "as.list.anansi::MultiFactor",
        "as.MAE",
        "as.MultiAssayExperiment",
        "as.TreeSummarizedExperiment",
        "as.TSE",
        "asMAE",
        "asMultiAssayExperiment",
        "asTreeSummarizedExperiment",
        "asTSE"
      ]
    },
    {
      "page": "AnansiTale",
      "title": "AnansiTale S7 container class. Not intended for general use.",
      "topics": [
        "AnansiTale",
        "AnansiTale-class"
      ]
    },
    {
      "page": "AnansiWeb-class",
      "title": "AnansiWeb S7 container class",
      "topics": [
        "AnansiWeb"
      ]
    },
    {
      "page": "AnansiWeb-methods",
      "title": "Methods for AnansiWeb S7 container class",
      "topics": [
        "AnansiWeb-methods",
        "dim.anansi::AnansiWeb",
        "dimnames.anansi::AnansiWeb",
        "names.anansi::AnansiWeb",
        "show.anansi::AnansiWeb"
      ]
    },
    {
      "page": "AnansiWeb-pairwise",
      "title": "Methods for pairwise operations on AnansiWeb objects",
      "topics": [
        "AnansiWeb-pairwise",
        "pairs.anansi::AnansiWeb",
        "pairs.AnansiWeb",
        "pairwiseApply.anansi::AnansiWeb",
        "pairwiseApply.AnansiWeb"
      ]
    },
    {
      "page": "dictionary",
      "title": "Get dictionary",
      "topics": [
        "dictionary",
        "dictionary-generic"
      ]
    },
    {
      "page": "kegg_link",
      "title": "Use linking data from the KEGG database.",
      "topics": [
        "ec2cpd",
        "ec2ko",
        "kegg_link"
      ]
    },
    {
      "page": "FMT_KOs",
      "title": "Snippet of the CLR-transformed inferred functional data from the FMT Aging study.",
      "topics": [
        "FMT_KOs"
      ]
    },
    {
      "page": "FMT_metab",
      "title": "Snippet of the CLR-transformed hippocampal metabolomics data from the FMT Aging study.",
      "topics": [
        "FMT_metab"
      ]
    },
    {
      "page": "FMT_metadata",
      "title": "Snippet of the metadata from the FMT Aging study.",
      "topics": [
        "FMT_metadata"
      ]
    },
    {
      "page": "getEdgeList",
      "title": "Get a listof edges",
      "topics": [
        "getEdgeList"
      ]
    },
    {
      "page": "getFeaturePairs",
      "title": "Get a list of all pairs of features",
      "topics": [
        "getFeaturePairs"
      ]
    },
    {
      "page": "getGraph",
      "title": "Get a graph object.",
      "topics": [
        "getGraph",
        "getGraph.list"
      ]
    },
    {
      "page": "krebs",
      "title": "Simplified snippet of the Krebs cycle",
      "topics": [
        "krebs"
      ]
    },
    {
      "page": "linkBiobakeryMap",
      "title": "make a link data.frame for biobakery mapping files input",
      "topics": [
        "linkBiobakeryMap"
      ]
    },
    {
      "page": "metadata",
      "title": "Get metadata.",
      "topics": [
        "metadata",
        "metadata,anansi::AnansiWeb-method"
      ]
    },
    {
      "page": "metadata-set",
      "title": "Set metadata.",
      "topics": [
        "metadata.set",
        "metadata<-",
        "metadata<-,anansi::AnansiWeb-method"
      ]
    },
    {
      "page": "MultiFactor-class",
      "title": "MultiFactor S7 container class",
      "topics": [
        "asMultiFactor",
        "MultiFactor"
      ]
    },
    {
      "page": "MultiFactor-methods",
      "title": "Methods for MultiFactor S7 container class",
      "topics": [
        "getGraph.anansi::MultiFactor",
        "levels.anansi::MultiFactor",
        "MultiFactor-methods",
        "unfactor",
        "unfactor,anansi::MultiFactor-method"
      ]
    },
    {
      "page": "pairwiseApply",
      "title": "Apply a function on each pair of features",
      "topics": [
        "pairwiseApply",
        "pairwiseApply-generic"
      ]
    },
    {
      "page": "plotAnansi",
      "title": "Dissociation plot",
      "topics": [
        "plotAnansi",
        "plotAnansi-generic",
        "plotAnansi-methods"
      ]
    },
    {
      "page": "randomAnansi",
      "title": "Generate a random AnansiWeb or MultiFactor",
      "topics": [
        "krebsDemoWeb",
        "randomAnansi",
        "randomMultiFactor",
        "randomWeb"
      ]
    },
    {
      "page": "tableX",
      "title": "Get tableX",
      "topics": [
        "tableX",
        "tableX-generic"
      ]
    },
    {
      "page": "tableY",
      "title": "Get tableY",
      "topics": [
        "tableY",
        "tableY-generic"
      ]
    },
    {
      "page": "weaveWeb-generic",
      "title": "Weave an AnansiWeb object",
      "topics": [
        "weaveKEGG",
        "weaveWeb"
      ]
    },
    {
      "page": "weaveWeb-methods",
      "title": "Weave an AnansiWeb",
      "topics": [
        "weaveWeb-methods",
        "weaveWeb.character",
        "weaveWeb.formula",
        "weaveWeb.MultiAssayExperiment",
        "weaveWeb.SingleCellExperiment",
        "weaveWeb.TreeSumarizedExperiment"
      ]
    }
  ],
  "_readme": "https://github.com/bioc/anansi/raw/HEAD/README.md",
  "_rundeps": [
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    "BH",
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    "BiocGenerics",
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