{
  "_id": "6a1d3b611d7bb097a0a3ef49",
  "Package": "moRphomenses",
  "Title": "Geometric Morphometric Tools to Align, Scale, and Compare\n\"Shape\" of Menstrual Cycle Hormones",
  "Version": "1.0.3",
  "Authors@R": "person(given = \"Daniel\", family = \"Ehrlich\", email = \"dan.ehrlich.e@gmail.com\", role = c(\"aut\", \"cre\"))",
  "Description": "Mitteroecker & Gunz (2009) <doi:10.1007/s11692-009-9055-x>\ndescribe how geometric morphometric methods allow researchers\nto quantify the size and shape of physical biological\nstructures. We provide tools to extend geometric morphometric\nprinciples to the study of non-physical structures, hormone\nprofiles, as outlined in Ehrlich et al (2021)\n<doi:10.1002/ajpa.24514>. Easily transform daily measures into\nmultivariate landmark-based data. Includes custom functions to\napply multivariate methods for data exploration as well as\nhypothesis testing. Also includes 'shiny' web app to streamline\ndata exploration. Developed to study menstrual cycle hormones\nbut functions have been generalized and should be applicable to\nany biomarker over any time period.",
  "License": "GPL (>= 3.0)",
  "URL": "<https://github.com/ClancyLabUIUC/moRphomenses>",
  "Encoding": "UTF-8",
  "LazyData": "true",
  "Roxygen": "list(markdown = TRUE)",
  "RoxygenNote": "7.3.2",
  "Repository": "https://clancylabuiuc.r-universe.dev",
  "Date/Publication": "2025-01-06 18:02:09 UTC",
  "RemoteUrl": "https://github.com/clancylabuiuc/morphomenses",
  "RemoteRef": "HEAD",
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  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-06-01 07:52:19 UTC",
    "User": "root"
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  "Author": "Daniel Ehrlich [aut, cre]",
  "Maintainer": "Daniel Ehrlich <dan.ehrlich.e@gmail.com>",
  "MD5sum": "0b35f1f9b712a8779f844c480d535fe8",
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  "_type": "src",
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  "_published": "2026-06-01T07:57:21.256Z",
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    "author": "Dan Ehrlich <ehrli097@umn.edu>",
    "committer": "Dan Ehrlich <ehrli097@umn.edu>",
    "message": "simplified graphical param switch\n",
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    "name": "Daniel Ehrlich",
    "email": "dan.ehrlich.e@gmail.com",
    "login": "ehrlichd",
    "description": "Biological anthropologist interested in evolutionary morphology and human variation.",
    "uuid": 26820755
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    },
    {
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    },
    {
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    },
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    },
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    },
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    },
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  "_owner": "clancylabuiuc",
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  "_usedby": 0,
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  "_tags": [],
  "_stars": 1,
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      "count": 15,
      "uuid": 26820755
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    "type": "user",
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    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/moRphomenses"
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  "_assets": [
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    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
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  "_realowner": "clancylabuiuc",
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      "date": "2024-12-12"
    },
    {
      "version": "1.0.3",
      "date": "2025-01-08"
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    "mm_BuildModel",
    "mm_CalcShapespace",
    "mm_CheckImputation",
    "mm_ColorLeaves",
    "mm_CompModel",
    "mm_CompModel_Full",
    "mm_coords_to_shape",
    "mm_Diagnostics",
    "mm_ellipse",
    "mm_Explorer",
    "mm_FillMissing",
    "mm_FlattenArray",
    "mm_get_interval",
    "mm_grp_dists",
    "mm_grps_PlotArray",
    "mm_mute_cols",
    "mm_Phenotype",
    "mm_PlotArray",
    "mm_pretty_pca",
    "mm_ScreePlot",
    "mm_SilPlot",
    "mm_transf_geom",
    "mm_transf_log",
    "mm_transf_log10",
    "mm_transf_minmax",
    "mm_transf_zscore",
    "mm_VizModel",
    "mm_VizShapespace",
    "print_summary"
  ],
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      "name": "mm_data",
      "title": "Sample hormone dataset",
      "object": "mm_data",
      "class": [
        "data.frame"
      ],
      "fields": [
        "ID",
        "CYCLEDAY",
        "MIDPOINT",
        "E1G"
      ],
      "rows": 2015,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "mm_ArrayData",
      "title": "Array Data",
      "topics": [
        "mm_ArrayData"
      ]
    },
    {
      "page": "mm_BuildModel",
      "title": "Build, implement, visualize multivariate linear model.",
      "topics": [
        "mm_BuildModel"
      ]
    },
    {
      "page": "mm_CalcShapespace",
      "title": "Define Shapespace of aligned dataset.",
      "topics": [
        "mm_CalcShapespace"
      ]
    },
    {
      "page": "mm_CheckImputation",
      "title": "Check Imputation",
      "topics": [
        "mm_CheckImputation"
      ]
    },
    {
      "page": "mm_ColorLeaves",
      "title": "Color leves of a dendrogram",
      "topics": [
        "mm_ColorLeaves"
      ]
    },
    {
      "page": "mm_CompModel",
      "title": "Compare Model Metrics",
      "topics": [
        "mm_CompModel"
      ]
    },
    {
      "page": "mm_CompModel_Full",
      "title": "Compare Complex Model Metrics",
      "topics": [
        "mm_CompModel_Full"
      ]
    },
    {
      "page": "mm_coords_to_shape",
      "title": "Visualize shape of target coordinates",
      "topics": [
        "mm_coords_to_shape"
      ]
    },
    {
      "page": "mm_data",
      "title": "Sample hormone dataset",
      "topics": [
        "mm_data"
      ]
    },
    {
      "page": "mm_diagnostics",
      "title": "Run a suite of diagnostic analyses.",
      "topics": [
        "mm_Diagnostics"
      ]
    },
    {
      "page": "mm_ellipse",
      "title": "Add confidence ellipses to an active scatterplot.",
      "topics": [
        "mm_ellipse"
      ]
    },
    {
      "page": "mm_Explorer",
      "title": "Launch mm_Explorer",
      "topics": [
        "mm_Explorer"
      ]
    },
    {
      "page": "mm_FillMissing",
      "title": "Impute Missing Data",
      "topics": [
        "mm_FillMissing"
      ]
    },
    {
      "page": "mm_FlattenArray",
      "title": "Flatten Array",
      "topics": [
        "mm_FlattenArray"
      ]
    },
    {
      "page": "mm_get_interval",
      "title": "Create equallly spaced intervals.",
      "topics": [
        "mm_get_interval"
      ]
    },
    {
      "page": "mm_grp_dists",
      "title": "Distance from Centroid",
      "topics": [
        "mm_grp_dists"
      ]
    },
    {
      "page": "mm_grps_PlotArray",
      "title": "Plot Arrays of groups",
      "topics": [
        "mm_grps_PlotArray"
      ]
    },
    {
      "page": "mm_mute_cols",
      "title": "Take a color and modify it",
      "topics": [
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      ]
    },
    {
      "page": "mm_Phenotype",
      "title": "Generate Phenotypes",
      "topics": [
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      ]
    },
    {
      "page": "mm_PlotArray",
      "title": "Plot Array Plot individuals and optionally mean form",
      "topics": [
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      ]
    },
    {
      "page": "mm_pretty_pca",
      "title": "Plot Calendar Days",
      "topics": [
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      ]
    },
    {
      "page": "mm_ScreePlot",
      "title": "Scree Plot",
      "topics": [
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      ]
    },
    {
      "page": "mm_SilPlot",
      "title": "Silhouette Width Plot",
      "topics": [
        "mm_SilPlot"
      ]
    },
    {
      "page": "mm_transf_geom",
      "title": "Geometric Scaling",
      "topics": [
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      ]
    },
    {
      "page": "mm_transf_log",
      "title": "natural log transform",
      "topics": [
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    },
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      "title": "Common log transform",
      "topics": [
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    },
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      "title": "Min-Max Scaling",
      "topics": [
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      ]
    },
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      "title": "Z scores",
      "topics": [
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      ]
    },
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      "title": "Visualize Multivariate LM",
      "topics": [
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      ]
    },
    {
      "page": "mm_VizShapespace",
      "title": "Visualize PC axes",
      "topics": [
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      ]
    },
    {
      "page": "moRphomenses",
      "title": "Geometric Morphometric Analysis of Hormone Cycle Phenotypes",
      "topics": [
        "moRphomenses",
        "moRphomenses_PACKAGE"
      ]
    },
    {
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      "title": "Print basic summary",
      "topics": [
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      ]
    }
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  "_readme": "https://github.com/clancylabuiuc/morphomenses/raw/HEAD/README.md",
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