{
  "_id": "6a100914acfb0bcc41c7ee7b",
  "Package": "grafify",
  "Type": "Package",
  "Title": "Easy Graphs for Data Visualisation and Linear Models for ANOVA",
  "Date": "2025-08-23",
  "Version": "5.1.0",
  "Authors@R": "c(person(\"Avinash R\", \"Shenoy\", email = \"a.shenoy@imperial.ac.uk\", role = c(\"cre\", \"aut\"), comment = c(ORCID = \"0000-0001-6228-9303\")))",
  "Description": "Easily explore data by plotting graphs with a few lines of\ncode. Use these ggplot() wrappers to quickly draw graphs of\nscatter/dots with box-whiskers, violins or SD error bars, data\ndistributions, before-after graphs, factorial ANOVA and more.\nCustomise graphs in many ways, for example, by choosing from\ncolour blind-friendly palettes (12 discreet, 3 continuous and 2\ndivergent palettes). Use the simple code for ANOVA as ordinary\n(lm()) or mixed-effects linear models (lmer()), including\nrandomised-block or repeated-measures designs, and fit\nnon-linear outcomes as a generalised additive model (gam) using\nmgcv(). Obtain estimated marginal means and perform post-hoc\ncomparisons on fitted models (via emmeans()). Also includes\nsmall datasets for practising code and teaching basics before\nusers move on to more complex designs. See vignettes for\ndetails on usage <https://grafify.shenoylab.com/>. Citation:\n<doi:10.5281/zenodo.5136508>.",
  "License": "GPL (>= 2)",
  "Encoding": "UTF-8",
  "LazyData": "true",
  "Language": "en-GB",
  "RoxygenNote": "7.3.2",
  "Roxygen": "list(markdown = TRUE)",
  "URL": "https://github.com/ashenoy-cmbi/grafify",
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  "Config/pak/sysreqs": "cmake make libicu-dev libuv1-dev",
  "Repository": "https://ashenoy-cmbi.r-universe.dev",
  "Date/Publication": "2025-08-25 19:49:21 UTC",
  "RemoteUrl": "https://github.com/ashenoy-cmbi/grafify",
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  "RemoteSha": "c14b13f0893f2a6f0355e9cbf6382f712dd51f09",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-05-22 07:38:32 UTC",
    "User": "root"
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  "Author": "Avinash R Shenoy [cre, aut] (ORCID:\n<https://orcid.org/0000-0001-6228-9303>)",
  "Maintainer": "Avinash R Shenoy <a.shenoy@imperial.ac.uk>",
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  "_user": "ashenoy-cmbi",
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  "_created": "2026-05-22T07:38:32.000Z",
  "_published": "2026-05-22T07:43:16.410Z",
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    "author": "Shenoy <ashenoy@ic.ac.uk>",
    "committer": "Shenoy <ashenoy@ic.ac.uk>",
    "message": "v5.1.0 CRAN 250825\n",
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    "email": "a.shenoy@imperial.ac.uk",
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    "description": "Reader of Innate Immunity & Infection, Imperial College London",
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  "_updates": [
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      "date": "2025-08-25"
    }
  ],
  "_topics": [
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    "linear-models",
    "post-hoc-comparisons",
    "statistics",
    "vignettes"
  ],
  "_stars": 57,
  "_contributors": [
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    "name": "Avinash Shenoy",
    "description": "Reader of Innate Immunity & Infection, Imperial College London"
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    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/grafify"
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  "_devurl": "https://github.com/ashenoy-cmbi/grafify",
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  "_rbuild": "4.6.0",
  "_assets": [
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    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/grafify.html",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "manual.pdf"
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  "_homeurl": "https://github.com/ashenoy-cmbi/grafify",
  "_realowner": "ashenoy-cmbi",
  "_cranurl": true,
  "_releases": [
    {
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      "date": "2022-01-20"
    },
    {
      "version": "2.1.0",
      "date": "2022-01-28"
    },
    {
      "version": "2.2.0",
      "date": "2022-03-24"
    },
    {
      "version": "2.3.0",
      "date": "2022-05-30"
    },
    {
      "version": "3.0.0",
      "date": "2022-10-23"
    },
    {
      "version": "3.0.1",
      "date": "2023-02-07"
    },
    {
      "version": "3.2.0",
      "date": "2023-04-30"
    },
    {
      "version": "4.0",
      "date": "2023-10-07"
    },
    {
      "version": "4.0.1",
      "date": "2024-02-25"
    },
    {
      "version": "5.0.0",
      "date": "2025-03-09"
    },
    {
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      "date": "2025-03-10"
    },
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      "version": "5.1.0",
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    }
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  "_exports": [
    "ga_anova",
    "ga_model",
    "get_graf_colours",
    "graf_col_palette",
    "graf_col_palette_default",
    "graf_colours",
    "graf_palettes",
    "make_1way_data",
    "make_1way_rb_data",
    "make_2way_data",
    "make_2way_rb_data",
    "mixed_anova",
    "mixed_anova_slopes",
    "mixed_model",
    "mixed_model_slopes",
    "plot_3d_point_sd",
    "plot_3d_scatterbar",
    "plot_3d_scatterbox",
    "plot_3d_scatterviolin",
    "plot_4d_point_sd",
    "plot_4d_scatterbar",
    "plot_4d_scatterbox",
    "plot_4d_scatterviolin",
    "plot_befafter_box",
    "plot_befafter_colors",
    "plot_befafter_colours",
    "plot_befafter_shapes",
    "plot_density",
    "plot_dotbar_sd",
    "plot_dotbox",
    "plot_dotviolin",
    "plot_gam_predict",
    "plot_grafify_palette",
    "plot_histogram",
    "plot_lm_predict",
    "plot_logscale",
    "plot_point_sd",
    "plot_qq_gam",
    "plot_qqline",
    "plot_qqmodel",
    "plot_scatterbar_sd",
    "plot_scatterbox",
    "plot_scatterviolin",
    "plot_xy_CatGroup",
    "plot_xy_Group",
    "plot_xy_NumGroup",
    "posthoc_Levelwise",
    "posthoc_Pairwise",
    "posthoc_Trends_Levelwise",
    "posthoc_Trends_Pairwise",
    "posthoc_Trends_vsRef",
    "posthoc_vsRef",
    "scale_color_grafify",
    "scale_colour_grafify",
    "scale_fill_grafify",
    "simple_anova",
    "simple_model",
    "table_summary",
    "table_x_reorder",
    "theme_grafify"
  ],
  "_datasets": [
    {
      "name": "data_1w_death",
      "title": "In vitro experiments measuring percentage cell death in three genotypes of cells.",
      "object": "data_1w_death",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Experiment",
        "Genotype",
        "Death"
      ],
      "rows": 15,
      "table": true,
      "tojson": true
    },
    {
      "name": "data_2w_Festing",
      "title": "Data from two-way ANOVA with randomised block design of treatments of strains of mice.",
      "object": "data_2w_Festing",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Block",
        "Treatment",
        "Strain",
        "GST"
      ],
      "rows": 16,
      "table": true,
      "tojson": true
    },
    {
      "name": "data_2w_Tdeath",
      "title": "In vitro measurement of percentage cell death - two-way ANOVA design with repeated measures, and randomised blocks.",
      "object": "data_2w_Tdeath",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Experiment",
        "Time",
        "Subject",
        "Genotype",
        "PI",
        "Time2"
      ],
      "rows": 24,
      "table": true,
      "tojson": true
    },
    {
      "name": "data_cholesterol",
      "title": "Hierarchical data from 25 subjects either treated or not at 5 hospitals - two-way ANOVA design with repeated measures.",
      "object": "data_cholesterol",
      "class": [
        "tbl_df",
        "tbl",
        "data.frame"
      ],
      "fields": [
        "Hospital",
        "Subject",
        "Treatment",
        "Cholesterol"
      ],
      "rows": 50,
      "table": true,
      "tojson": true
    },
    {
      "name": "data_doubling_time",
      "title": "Doubling time of E.coli measured by 10 students three independent times.",
      "object": "data_doubling_time",
      "class": [
        "tbl_df",
        "tbl",
        "data.frame"
      ],
      "fields": [
        "Experiment",
        "Student",
        "Doubling_time"
      ],
      "rows": 30,
      "table": true,
      "tojson": true
    },
    {
      "name": "data_t_pdiff",
      "title": "Matched data from two groups where difference between them is consistent.",
      "object": "data_t_pdiff",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Subject",
        "Condition",
        "Mass"
      ],
      "rows": 20,
      "table": true,
      "tojson": true
    },
    {
      "name": "data_t_pratio",
      "title": "Matched data from two groups where ratio between them is consistent.",
      "object": "data_t_pratio",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Genotype",
        "Cytokine",
        "Experiment"
      ],
      "rows": 66,
      "table": true,
      "tojson": true
    },
    {
      "name": "data_zooplankton",
      "title": "Time-series data on zooplankton in lake Menon.",
      "object": "data_zooplankton",
      "class": [
        "data.frame"
      ],
      "fields": [
        "day",
        "year",
        "lake",
        "taxon",
        "density",
        "density_adj",
        "min_density",
        "density_scaled"
      ],
      "rows": 1127,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "data_1w_death",
      "title": "In vitro experiments measuring percentage cell death in three genotypes of cells.",
      "topics": [
        "data_1w_death"
      ]
    },
    {
      "page": "data_2w_Festing",
      "title": "Data from two-way ANOVA with randomised block design of treatments of strains of mice.",
      "topics": [
        "data_2w_Festing"
      ]
    },
    {
      "page": "data_2w_Tdeath",
      "title": "In vitro measurement of percentage cell death - two-way ANOVA design with repeated measures, and randomised blocks.",
      "topics": [
        "data_2w_Tdeath"
      ]
    },
    {
      "page": "data_cholesterol",
      "title": "Hierarchical data from 25 subjects either treated or not at 5 hospitals - two-way ANOVA design with repeated measures.",
      "topics": [
        "data_cholesterol"
      ]
    },
    {
      "page": "data_doubling_time",
      "title": "Doubling time of E.coli measured by 10 students three independent times.",
      "topics": [
        "data_doubling_time"
      ]
    },
    {
      "page": "data_t_pdiff",
      "title": "Matched data from two groups where difference between them is consistent.",
      "topics": [
        "data_t_pdiff"
      ]
    },
    {
      "page": "data_t_pratio",
      "title": "Matched data from two groups where ratio between them is consistent.",
      "topics": [
        "data_t_pratio"
      ]
    },
    {
      "page": "data_zooplankton",
      "title": "Time-series data on zooplankton in lake Menon.",
      "topics": [
        "data_zooplankton"
      ]
    },
    {
      "page": "ga_anova",
      "title": "ANOVA table from a generalised additive model ('gam')",
      "topics": [
        "ga_anova"
      ]
    },
    {
      "page": "ga_model",
      "title": "Fit a generalised additive model ('gam')",
      "topics": [
        "ga_model"
      ]
    },
    {
      "page": "get_graf_colours",
      "title": "Get graf internal",
      "topics": [
        "get_graf_colours"
      ]
    },
    {
      "page": "graf_col_palette",
      "title": "Call 'grafify' palettes for scale & fill functions",
      "topics": [
        "graf_col_palette"
      ]
    },
    {
      "page": "graf_col_palette_default",
      "title": "Call 'grafify' palettes for scale & fill functions",
      "topics": [
        "graf_col_palette_default"
      ]
    },
    {
      "page": "graf_colours",
      "title": "List of hexcodes of colours in grafify palettes",
      "topics": [
        "graf_colours"
      ]
    },
    {
      "page": "graf_palettes",
      "title": "List of palettes available in grafify package",
      "topics": [
        "graf_palettes"
      ]
    },
    {
      "page": "make_1way_data",
      "title": "Make one-way or two-way independent group or randomised block design data.",
      "topics": [
        "make_1way_data"
      ]
    },
    {
      "page": "make_1way_rb_data",
      "title": "Make one-way or two-way independent group or randomised block design data.",
      "topics": [
        "make_1way_rb_data"
      ]
    },
    {
      "page": "make_2way_data",
      "title": "Make one-way or two-way independent group or randomised block design data.",
      "topics": [
        "make_2way_data"
      ]
    },
    {
      "page": "make_2way_rb_data",
      "title": "Make one-way or two-way independent group or randomised block design data.",
      "topics": [
        "make_2way_rb_data"
      ]
    },
    {
      "page": "mixed_anova",
      "title": "ANOVA table from linear mixed effects analysis.",
      "topics": [
        "mixed_anova"
      ]
    },
    {
      "page": "mixed_anova_slopes",
      "title": "ANOVA table from linear mixed effects analysis.",
      "topics": [
        "mixed_anova_slopes"
      ]
    },
    {
      "page": "mixed_model",
      "title": "Model from a linear mixed effects model",
      "topics": [
        "mixed_model"
      ]
    },
    {
      "page": "mixed_model_slopes",
      "title": "Model from a linear mixed effects model with varying slopes",
      "topics": [
        "mixed_model_slopes"
      ]
    },
    {
      "page": "plot_3d_point_sd",
      "title": "Plot of mean & error bars for 1-way ANOVAs with matched shapes mapped to blocking factor.",
      "topics": [
        "plot_3d_point_sd"
      ]
    },
    {
      "page": "plot_3d_scatterbar",
      "title": "Plot a bar graph for 1-way ANOVAs with matched shapes mapped to blocking factor.",
      "topics": [
        "plot_3d_scatterbar"
      ]
    },
    {
      "page": "plot_3d_scatterbox",
      "title": "Plot a scatter and box plot for 1-way ANOVAs with matched shapes mapped to blocking factor.",
      "topics": [
        "plot_3d_scatterbox"
      ]
    },
    {
      "page": "plot_3d_scatterviolin",
      "title": "Plot a scatter with violin & box plot for 1-way ANOVAs with matched shapes mapped to blocking factor.",
      "topics": [
        "plot_3d_scatterviolin"
      ]
    },
    {
      "page": "plot_4d_point_sd",
      "title": "Plot mean & error bars for 2-way ANOVAs with or without a blocking factor.",
      "topics": [
        "plot_4d_point_sd"
      ]
    },
    {
      "page": "plot_4d_scatterbar",
      "title": "Plot scatter plot with bar & error bars for 2-way ANOVAs with or without a blocking factor.",
      "topics": [
        "plot_4d_scatterbar"
      ]
    },
    {
      "page": "plot_4d_scatterbox",
      "title": "Plot scatter, box & whiskers for 2-way ANOVAs with or without a blocking factor.",
      "topics": [
        "plot_4d_scatterbox"
      ]
    },
    {
      "page": "plot_4d_scatterviolin",
      "title": "Plot scatter, box & violin for 2-way ANOVAs with or without a blocking factor.",
      "topics": [
        "plot_4d_scatterviolin"
      ]
    },
    {
      "page": "plot_befafter_box",
      "title": "Before-after style graph with a boxplot",
      "topics": [
        "plot_befafter_box"
      ]
    },
    {
      "page": "plot_befafter_colours",
      "title": "Plot a before-after plot with lines joining colour-matched symbols.",
      "topics": [
        "plot_befafter_colors",
        "plot_befafter_colours"
      ]
    },
    {
      "page": "plot_befafter_shapes",
      "title": "Plot a before-after plot with lines joining shape-matched symbols.",
      "topics": [
        "plot_befafter_shapes"
      ]
    },
    {
      "page": "plot_density",
      "title": "Plot density distribution of data.",
      "topics": [
        "plot_density"
      ]
    },
    {
      "page": "plot_dotbar_sd",
      "title": "Plot a dotplot on a bar graph with SD error bars with two variables.",
      "topics": [
        "plot_dotbar_sd"
      ]
    },
    {
      "page": "plot_dotbox",
      "title": "Plot a dotplot on a boxplot with two variables.",
      "topics": [
        "plot_dotbox"
      ]
    },
    {
      "page": "plot_dotviolin",
      "title": "Plot a dotplot on a violin plot with two variables.",
      "topics": [
        "plot_dotviolin"
      ]
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