gratia (version 0.8.1)

draw.smooth_estimates: Plot the result of a call to smooth_estimates()

Description

Plot the result of a call to smooth_estimates()

Usage

# S3 method for smooth_estimates
draw(
  object,
  constant = NULL,
  fun = NULL,
  contour = TRUE,
  contour_col = "black",
  n_contour = NULL,
  ci_alpha = 0.2,
  ci_col = "black",
  smooth_col = "black",
  resid_col = "steelblue3",
  partial_match = FALSE,
  discrete_colour = NULL,
  discrete_fill = NULL,
  continuous_colour = NULL,
  continuous_fill = NULL,
  angle = NULL,
  ylim = NULL,
  projection = "orthographic",
  orientation = NULL,
  ...
)

Arguments

object

a fitted GAM, the result of a call to mgcv::gam().

constant

numeric; a constant to add to the estimated values of the smooth. constant, if supplied, will be added to the estimated value before the confidence band is computed.

fun

function; a function that will be applied to the estimated values and confidence interval before plotting. Can be a function or the name of a function. Function fun will be applied after adding any constant, if provided.

contour

logical; should contours be draw on the plot using ggplot2::geom_contour().

contour_col

colour specification for contour lines.

n_contour

numeric; the number of contour bins. Will result in n_contour - 1 contour lines being drawn. See ggplot2::geom_contour().

ci_alpha

numeric; alpha transparency for confidence or simultaneous interval.

ci_col

colour specification for the confidence/credible intervals band. Affects the fill of the interval.

smooth_col

colour specification for the smooth line.

resid_col

colour specification for the partial residuals.

partial_match

logical; should smooths be selected by partial matches with select? If TRUE, select can only be a single string to match against.

discrete_colour, discrete_fill, continuous_colour, continuous_fill

suitable scales for the types of data.

angle

numeric; the angle at which the x axis tick labels are to be drawn passed to the angle argument of ggplot2::guide_axis().

ylim

numeric; vector of y axis limits to use all all panels drawn.

projection

character; projection to use, see ggplot2::coord_map() for details.

orientation

an optional vector c(latitude, longitude, rotation) which describes where the "North Pole" should be when computing the projection. The third value is a clockwise rotation (in degrees), which defaults to the midrange of the longitude coordinates in the data. The default values for orientation therefore are `c(20, 0, mean(range(longitude))))`` if this is not specified by the user. See links in ggplot2::coord_map() for more information.

...

additional arguments passed to patchwork::wrap_plots().

Examples

load_mgcv()
# example data
df <- data_sim("eg1", seed = 21)
# fit GAM
m <- gam(y ~ s(x0) + s(x1) + s(x2) + s(x3), data = df, method = "REML")
# plot all of the estimated smooths
sm <- smooth_estimates(m)
draw(sm)
# evaluate smooth of `x2`
sm <- smooth_estimates(m, smooth = "s(x2)")
# plot it
draw(sm)

# customising some plot elements
draw(sm, ci_col = "steelblue", smooth_col = "forestgreen", ci_alpha = 0.3)

# Add a constant to the plotted smooth
draw(sm, constant = coef(m)[1])