# Easy Graphs for Data Visualisation and Linear Models for ANOVA

## Documentation for package ‘grafify’ version 5.1.0

- DESCRIPTION file.
- Package NEWS.

## Help Pages

data_1w_death | In vitro experiments measuring percentage cell death in three genotypes of cells.
data_2w_Festing | Data from two-way ANOVA with randomised block design of treatments of strains of mice.
data_2w_Tdeath | In vitro measurement of percentage cell death - two-way ANOVA design with repeated measures, and randomised blocks.
data_cholesterol | Hierarchical data from 25 subjects either treated or not at 5 hospitals - two-way ANOVA design with repeated measures.
data_doubling_time | Doubling time of E.coli measured by 10 students three independent times.
data_t_pdiff | Matched data from two groups where difference between them is consistent.
data_t_pratio | Matched data from two groups where ratio between them is consistent.
data_zooplankton | Time-series data on zooplankton in lake Menon.
ga_anova | ANOVA table from a generalised additive model ('gam')
ga_model | Fit a generalised additive model ('gam')
get_graf_colours | Get graf internal
graf_colours | List of hexcodes of colours in grafify palettes
graf_col_palette | Call 'grafify' palettes for scale & fill functions
graf_col_palette_default | Call 'grafify' palettes for scale & fill functions
graf_palettes | List of palettes available in grafify package
make_1way_data | Make one-way or two-way independent group or randomised block design data.
make_1way_rb_data | Make one-way or two-way independent group or randomised block design data.
make_2way_data | Make one-way or two-way independent group or randomised block design data.
make_2way_rb_data | Make one-way or two-way independent group or randomised block design data.
mixed_anova | ANOVA table from linear mixed effects analysis.
mixed_anova_slopes | ANOVA table from linear mixed effects analysis.
mixed_model | Model from a linear mixed effects model
mixed_model_slopes | Model from a linear mixed effects model with varying slopes
plot_3d_point_sd | Plot of mean & error bars for 1-way ANOVAs with matched shapes mapped to blocking factor.
plot_3d_scatterbar | Plot a bar graph for 1-way ANOVAs with matched shapes mapped to blocking factor.
plot_3d_scatterbox | Plot a scatter and box plot for 1-way ANOVAs with matched shapes mapped to blocking factor.
plot_3d_scatterviolin | Plot a scatter with violin & box plot for 1-way ANOVAs with matched shapes mapped to blocking factor.
plot_4d_point_sd | Plot mean & error bars for 2-way ANOVAs with or without a blocking factor.
plot_4d_scatterbar | Plot scatter plot with bar & error bars for 2-way ANOVAs with or without a blocking factor.
plot_4d_scatterbox | Plot scatter, box & whiskers for 2-way ANOVAs with or without a blocking factor.
plot_4d_scatterviolin | Plot scatter, box & violin for 2-way ANOVAs with or without a blocking factor.
plot_befafter_box | Before-after style graph with a boxplot
plot_befafter_colors | Plot a before-after plot with lines joining colour-matched symbols.
plot_befafter_colours | Plot a before-after plot with lines joining colour-matched symbols.
plot_befafter_shapes | Plot a before-after plot with lines joining shape-matched symbols.
plot_density | Plot density distribution of data.
plot_dotbar_sd | Plot a dotplot on a bar graph with SD error bars with two variables.
plot_dotbox | Plot a dotplot on a boxplot with two variables.
plot_dotviolin | Plot a dotplot on a violin plot with two variables.
plot_gam_predict | Plot prediction of 'gam' model
plot_grafify_palette | See grafify colour palettes
plot_histogram | Plot data distribution as histograms.
plot_lm_predict | Plot data and predictions from linear model
plot_logscale | Add log transformations to graphs
plot_point_sd | Plot a point as mean with SD error bars using two variables.
plot_qqline | Plot quantile-quantile (QQ) graphs from data.
plot_qqmodel | Plot quantile-quantile (QQ) graphs from residuals of linear models.
plot_qq_gam | Plot model diagnostics for generalised additive models
plot_scatterbar_sd | Plot scatter dots on a bar graph with SD error bars with two variables.
plot_scatterbox | Plot a scatter plot on a boxplot with two variables.
plot_scatterviolin | Plot a scatter plot on a violin plot with two variables.
plot_xy_CatGroup | Plot points on a quantitative X - Y plot & a categorical grouping variable.
plot_xy_Group | Plot points on a quantitative X - Y plot & a grouping variable.
plot_xy_NumGroup | Plot points on a quantitative X - Y plot & a numeric grouping variable.
posthoc_Levelwise | Level-wise post-hoc comparisons from a linear or linear mixed effects model.
posthoc_Pairwise | Pairwise post-hoc comparisons from a linear or linear mixed effects model.
posthoc_Trends_Levelwise | Use emtrends to get level-wise comparison of slopes from a linear model.
posthoc_Trends_Pairwise | Use emtrends to get pairwise comparison of slopes from a linear model.
posthoc_Trends_vsRef | Use emtrends to get level-wise comparison of slopes from a linear model.
posthoc_vsRef | Post-hoc comparisons to a control or reference group.
scale_color_grafify | 'scale_colour_' and 'scale_fill_' functions
scale_colour_grafify | 'scale_colour_' and 'scale_fill_' functions
scale_fill_grafify | 'scale_colour_' and 'scale_fill_' functions
simple_anova | ANOVA table from a linear model fit to data.
simple_model | Model from a linear model fit to data.
table_summary | Get numeric summary grouped by factors
table_x_reorder | Reordering groups along X-axis
theme_grafify | A modified 'theme_classic()' for 'grafify'-like graphs.