{
  "_id": "6a1f168cb401979e7341e808",
  "Package": "recolorize",
  "Title": "Color-Based Image Segmentation",
  "Version": "0.2.0",
  "Authors@R": "person(given = \"Hannah\",\nfamily = \"Weller\",\nrole = c(\"aut\", \"cre\"),\nemail = \"hannahiweller@gmail.com\",\ncomment = c(ORCID = \"0000-0002-5252-4282\"))",
  "Description": "Automatic, semi-automatic, and manual functions for\ngenerating color maps from images. The idea is to simplify the\ncolors of an image according to a metric that is useful for the\nuser, using deterministic methods whenever possible. Many\nimages will be clustered well using the out-of-the-box\nfunctions, but the package also includes a toolbox of functions\nfor making manual adjustments (layer merging/isolation,\nblurring, fitting to provided color clusters or those from\nanother image, etc). Also includes export methods for other\ncolor/pattern analysis packages (pavo, patternize,\ncolordistance).",
  "License": "CC BY 4.0",
  "Encoding": "UTF-8",
  "LazyData": "true",
  "Roxygen": "list(markdown = TRUE)",
  "RoxygenNote": "7.3.1",
  "VignetteBuilder": "knitr",
  "URL": "https://hiweller.github.io/recolorize/,\nhttps://github.com/hiweller/recolorize",
  "BugReports": "https://github.com/hiweller/recolorize/issues",
  "Config/pak/sysreqs": "libabsl-dev cmake libfftw3-dev libgdal-dev gdal-bin\nlibgeos-dev libglpk-dev libmagick++-dev gsfonts libicu-dev\nlibjpeg-dev libpng-dev libtiff-dev libxml2-dev libssl-dev\nlibproj-dev libsqlite3-dev libudunits2-dev libx11-dev",
  "Repository": "https://hiweller.r-universe.dev",
  "Date/Publication": "2025-03-03 17:06:58 UTC",
  "RemoteUrl": "https://github.com/hiweller/recolorize",
  "RemoteRef": "HEAD",
  "RemoteSha": "068d860c852012d19f46b246a53acc0f5de7d279",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-05-17 06:22:10 UTC",
    "User": "root"
  },
  "Author": "Hannah Weller [aut, cre] (ORCID:\n<https://orcid.org/0000-0002-5252-4282>)",
  "Maintainer": "Hannah Weller <hannahiweller@gmail.com>",
  "MD5sum": "cd5c61fff43d09356525ad8486d51021",
  "_user": "hiweller",
  "_type": "src",
  "_file": "recolorize_0.2.0.tar.gz",
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  "_created": "2026-05-17T06:22:10.000Z",
  "_published": "2026-06-02T17:44:44.716Z",
  "_distro": "noble",
  "_jobs": [
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  "_status": "success",
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  "_upstream": "https://github.com/hiweller/recolorize",
  "_commit": {
    "id": "068d860c852012d19f46b246a53acc0f5de7d279",
    "author": "Weller <hannahwe@Mac.wlan>",
    "committer": "Weller <hannahwe@Mac.wlan>",
    "message": "Updating cran-comments before submission\n",
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  "_maintainer": {
    "name": "Hannah Weller",
    "email": "hannahiweller@gmail.com",
    "login": "hiweller",
    "description": "Marie-Curie postdoctoral research fellow at the University of Helsinki with the Integrative Evolutionary Biology Group.",
    "uuid": 12073558,
    "orcid": "0000-0002-5252-4282"
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 4.1.0",
      "role": "Depends"
    },
    {
      "package": "imager",
      "role": "Imports"
    },
    {
      "package": "stats",
      "role": "Imports"
    },
    {
      "package": "png",
      "role": "Imports"
    },
    {
      "package": "pavo",
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    },
    {
      "package": "grDevices",
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    },
    {
      "package": "graphics",
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    },
    {
      "package": "mgcv",
      "role": "Imports"
    },
    {
      "package": "colorRamps",
      "role": "Imports"
    },
    {
      "package": "plotfunctions",
      "role": "Imports"
    },
    {
      "package": "abind",
      "role": "Imports"
    },
    {
      "package": "raster",
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      "package": "plot3D",
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  "_stars": 41,
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    "name": "Hannah Weller",
    "description": "Marie-Curie postdoctoral research fellow at the University of Helsinki with the Integrative Evolutionary Biology Group."
  },
  "_downloads": {
    "count": 382,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/recolorize"
  },
  "_devurl": "https://github.com/hiweller/recolorize",
  "_pkgdown": "https://hiweller.github.io/recolorize/",
  "_searchresults": 120,
  "_rbuild": "4.6.0",
  "_assets": [
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    "extra/citation.html",
    "extra/citation.json",
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    "extra/contents.json",
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    "extra/NEWS.txt",
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    "extra/readme.md",
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  "_homeurl": "https://github.com/hiweller/recolorize",
  "_realowner": "hiweller",
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  "_releases": [
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      "version": "0.1.0",
      "date": "2021-12-07"
    },
    {
      "version": "0.2.0",
      "date": "2025-03-03"
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  ],
  "_exports": [
    "absorbLayer",
    "add_image",
    "adjust_color",
    "assignPixels",
    "backgroundCondition",
    "backgroundIndex",
    "blurImage",
    "brick_to_array",
    "classify_recolorize",
    "colorClusters",
    "colorResiduals",
    "constructImage",
    "editLayer",
    "editLayers",
    "hclust_color",
    "imDist",
    "imHeatmap",
    "imposeColors",
    "match_colors",
    "medianColors",
    "mergeLayers",
    "plotColorClusters",
    "plotColorPalette",
    "plotImageArray",
    "raster_to_array",
    "readImage",
    "recluster",
    "recoloredImage",
    "recolorize",
    "recolorize_adjacency",
    "recolorize_to_patternize",
    "recolorize_to_png",
    "recolorize2",
    "recolorizeVector",
    "reorder_colors",
    "rerun_recolorize",
    "splitByColor",
    "thresholdRecolor",
    "wernerColor"
  ],
  "_datasets": [
    {
      "name": "werner",
      "title": "Werner's nomenclature of colors",
      "object": "werner",
      "class": [
        "data.frame"
      ],
      "fields": [
        "index",
        "family",
        "name",
        "hex"
      ],
      "rows": 110,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "absorbLayer",
      "title": "Absorb a layer into its surrounding color patches",
      "topics": [
        "absorbLayer"
      ]
    },
    {
      "page": "add_image",
      "title": "Add a raster image to a plot",
      "topics": [
        "add_image"
      ]
    },
    {
      "page": "adjust_color",
      "title": "Adjust the saturation and brightness of a color",
      "topics": [
        "adjust_color"
      ]
    },
    {
      "page": "apply_imager_operation",
      "title": "Apply imager operations to layers of an image",
      "topics": [
        "apply_imager_operation"
      ]
    },
    {
      "page": "array_to_cimg",
      "title": "Converts from a raster array to a cimg object",
      "topics": [
        "array_to_cimg"
      ]
    },
    {
      "page": "array_to_RasterStack",
      "title": "Convert from an array to a raster stack",
      "topics": [
        "array_to_RasterStack"
      ]
    },
    {
      "page": "assignPixels",
      "title": "Assign a 2D matrix of pixels to specified colors",
      "topics": [
        "assignPixels"
      ]
    },
    {
      "page": "backgroundCondition",
      "title": "Generate a background condition for masking",
      "topics": [
        "backgroundCondition"
      ]
    },
    {
      "page": "backgroundIndex",
      "title": "Index and remove background pixels for color clustering",
      "topics": [
        "backgroundIndex"
      ]
    },
    {
      "page": "blurImage",
      "title": "Blur an image",
      "topics": [
        "blurImage"
      ]
    },
    {
      "page": "brick_to_array",
      "title": "Convert from a RasterBrick to an array",
      "topics": [
        "brick_to_array"
      ]
    },
    {
      "page": "cielab_coldist",
      "title": "Generate a 'coldist' object for CIE Lab colors",
      "topics": [
        "cielab_coldist"
      ]
    },
    {
      "page": "cimg_to_array",
      "title": "Converts from cimg to raster array",
      "topics": [
        "cimg_to_array"
      ]
    },
    {
      "page": "classify_recolorize",
      "title": "Convert a 'recolorize' object to a 'classify' object",
      "topics": [
        "classify_recolorize"
      ]
    },
    {
      "page": "clean_merge_params",
      "title": "Clean up parameters passed to mergeLayers",
      "topics": [
        "clean_merge_params"
      ]
    },
    {
      "page": "col2col",
      "title": "Modified convertColor",
      "topics": [
        "col2col"
      ]
    },
    {
      "page": "colorClusters",
      "title": "Generate color clusters from an image",
      "topics": [
        "colorClusters"
      ]
    },
    {
      "page": "colorClustersHist",
      "title": "Cluster pixel colors using histogram binning",
      "topics": [
        "colorClustersHist"
      ]
    },
    {
      "page": "colorClustersKMeans",
      "title": "Cluster pixel colors using K-means clustering",
      "topics": [
        "colorClustersKMeans"
      ]
    },
    {
      "page": "colorResiduals",
      "title": "Calculate squared residuals for color centers",
      "topics": [
        "colorResiduals"
      ]
    },
    {
      "page": "constructImage",
      "title": "Generate an image from pixel assignments and color matrix",
      "topics": [
        "constructImage"
      ]
    },
    {
      "page": "editLayer",
      "title": "Edit a color patch using morphological operations",
      "topics": [
        "editLayer"
      ]
    },
    {
      "page": "editLayers",
      "title": "Edit multiple color patches using morphological operations",
      "topics": [
        "editLayers"
      ]
    },
    {
      "page": "expand_recolorize",
      "title": "Expand aspects of a recolorize object for other functions",
      "topics": [
        "expand_recolorize"
      ]
    },
    {
      "page": "hclust_color",
      "title": "Plot and group colors by similarity",
      "topics": [
        "hclust_color"
      ]
    },
    {
      "page": "imDist",
      "title": "Calculates the distance between non-transparent pixels in images",
      "topics": [
        "imDist"
      ]
    },
    {
      "page": "imHeatmap",
      "title": "Plot a heatmap of a matrix of color distances",
      "topics": [
        "imHeatmap"
      ]
    },
    {
      "page": "imposeColors",
      "title": "Recolor an image to a provided set of colors",
      "topics": [
        "imposeColors"
      ]
    },
    {
      "page": "labelCol",
      "title": "Change colors of dendrogram tips",
      "topics": [
        "labelCol"
      ]
    },
    {
      "page": "match_colors",
      "title": "Reorder a color palette to best match a reference palette",
      "topics": [
        "match_colors"
      ]
    },
    {
      "page": "medianColors",
      "title": "Change color centers to median color of all pixels assigned to it",
      "topics": [
        "medianColors"
      ]
    },
    {
      "page": "mergeLayers",
      "title": "Merge layers in a recolorized image",
      "topics": [
        "mergeLayers"
      ]
    },
    {
      "page": "pixelAssignMatrix",
      "title": "Make pixel assignment matrix for recoloring",
      "topics": [
        "pixelAssignMatrix"
      ]
    },
    {
      "page": "plot.recolorize",
      "title": "Plot recolorized image results",
      "topics": [
        "plot.recolorize"
      ]
    },
    {
      "page": "plot.recolorizeVector",
      "title": "Plot a 'recolorizeVector' object",
      "topics": [
        "plot.recolorizeVector"
      ]
    },
    {
      "page": "plotColorClusters",
      "title": "Plot color clusters in a color space",
      "topics": [
        "plotColorClusters"
      ]
    },
    {
      "page": "plotColorPalette",
      "title": "Plot a color palette",
      "topics": [
        "plotColorPalette"
      ]
    },
    {
      "page": "plotImageArray",
      "title": "Plot a 3D array as an RGB image",
      "topics": [
        "plotImageArray"
      ]
    },
    {
      "page": "raster_to_array",
      "title": "Convert from a (small-r) raster object to an RGB array",
      "topics": [
        "raster_to_array"
      ]
    },
    {
      "page": "readImage",
      "title": "Read in an image as a 3D array",
      "topics": [
        "readImage"
      ]
    },
    {
      "page": "recluster",
      "title": "Recluster color centers based on color similarity",
      "topics": [
        "recluster"
      ]
    },
    {
      "page": "recoloredImage",
      "title": "Get recolored image from a recolorize object",
      "topics": [
        "recoloredImage"
      ]
    },
    {
      "page": "recolorize",
      "title": "Simplify the colors of an image",
      "topics": [
        "recolorize"
      ]
    },
    {
      "page": "recolorize_adjacency",
      "title": "Run 'pavo''s adjacency and boundary strength analysis on a 'recolorize' object",
      "topics": [
        "recolorize_adjacency"
      ]
    },
    {
      "page": "recolorize_to_patternize",
      "title": "Convert a recolorize object to a raster object",
      "topics": [
        "recolorize_to_patternize"
      ]
    },
    {
      "page": "recolorize_to_png",
      "title": "Save a recolored image as a PNG",
      "topics": [
        "recolorize_to_png"
      ]
    },
    {
      "page": "recolorize2",
      "title": "Recolorize with automatic thresholding",
      "topics": [
        "recolorize2"
      ]
    },
    {
      "page": "recolorizeVector",
      "title": "Convert a recolorize object to a vector",
      "topics": [
        "recolorizeVector"
      ]
    },
    {
      "page": "reorder_colors",
      "title": "Reorder colors in a recolorize object",
      "topics": [
        "reorder_colors"
      ]
    },
    {
      "page": "rerun_recolorize",
      "title": "Rerun the sequence of calls used to produce a recolorize object",
      "topics": [
        "rerun_recolorize"
      ]
    },
    {
      "page": "rgb2hsl",
      "title": "Convert RGB colors to HSL",
      "topics": [
        "rgb2hsl"
      ]
    },
    {
      "page": "splitByColor",
      "title": "Split color clusters in a recolorize object into layers",
      "topics": [
        "splitByColor"
      ]
    },
    {
      "page": "thresholdRecolor",
      "title": "Drop minor colors from a recolorize object",
      "topics": [
        "thresholdRecolor"
      ]
    },
    {
      "page": "werner",
      "title": "Werner's nomenclature of colors",
      "topics": [
        "werner"
      ]
    },
    {
      "page": "wernerColor",
      "title": "Remap an image to Werner's nomenclature",
      "topics": [
        "wernerColor"
      ]
    }
  ],
  "_readme": "https://github.com/hiweller/recolorize/raw/HEAD/README.md",
  "_rundeps": [
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  "_vignettes": [
    {
      "source": "Introduction.Rmd",
      "filename": "Introduction.html",
      "title": "Introduction",
      "engine": "knitr::rmarkdown",
      "headings": [
        "recolorize: color-based image segmentation (for people with other things to do)",
        "Quick start",
        "Batch processing",
        "The recolorize class",
        "General guidelines",
        "This is a lot of options. How do I choose a procedure?",
        "Can you define an optimality condition to do all the segmentation automatically?",
        "What about batch processing?"
      ],
      "created": "2021-04-08 17:32:58",
      "modified": "2025-03-03 17:06:58",
      "commits": 16
    },
    {
      "source": "step00_prep.Rmd",
      "filename": "step00_prep.html",
      "title": "Step 0: Image acquisition and preparation",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Quick version",
        "Defining your question(s)",
        "Image acquisition",
        "Image preparation",
        "Background masking"
      ],
      "created": "2021-11-30 18:37:21",
      "modified": "2021-12-06 22:57:27",
      "commits": 8
    },
    {
      "source": "step01_loading.Rmd",
      "filename": "step01_loading.html",
      "title": "Step 1: Loading & processing images",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Reading an image into R"
      ],
      "created": "2021-11-30 18:37:21",
      "modified": "2021-12-06 22:57:27",
      "commits": 7
    },
    {
      "source": "step02_initial_cluster.Rmd",
      "filename": "step02_initial_cluster.html",
      "title": "Step 2: Initial clustering",
      "engine": "knitr::rmarkdown",
      "headings": [
        "The recolorize function",
        "Color spaces",
        "Clustering methods",
        "Number of clusters",
        "imposeColors()"
      ],
      "created": "2021-11-30 18:37:21",
      "modified": "2021-12-06 22:57:27",
      "commits": 8
    },
    {
      "source": "step03_refinement.Rmd",
      "filename": "step03_refinement.html",
      "title": "Step 3: Refinement",
      "engine": "knitr::rmarkdown",
      "headings": [
        "recluster() and recolorize2()",
        "thresholdRecolor()"
      ],
      "created": "2021-11-30 18:37:21",
      "modified": "2021-12-06 22:57:27",
      "commits": 8
    },
    {
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