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Box plot of one pair, with a point per image

Source: R/spicyBoxPlot.R
spicyBoxPlot.Rd

Shows the per-image value of one pair in each condition: a box plot with the images as points behind it. For the cell method the value is the effect of spicy() in each image (by default the extra fraction of to cells with a from cell within r; with effect = "count", the extra from cells per to cell), and each point is sized by how much the image contributes to the test (its weight in the frailty model, relative to the average image of its condition). With interactive = TRUE the plot is a plotly widget: hover over a point to see its image, patient, excess and weight, which helps to find images worth looking at with plotImage().

Usage

spicyBoxPlot(
  results,
  from = NULL,
  to = NULL,
  rank = NULL,
  interactive = FALSE,
  parent = NULL
)

Arguments

results

The SpicyResults object returned by spicy() (either method).

from

The from cell type (the neighbours looked for around each to cell).

to

The to cell type (the centre).

rank

Alternatively, the rank of the pair by p-value (1 is the most significant).

interactive

Return an interactive plotly widget instead of a ggplot (needs the plotly package).

parent

For a Kontextual result (Statial::kontextualTest()), the parent population of the triple.

Value

A ggplot, or with interactive = TRUE a plotly htmlwidget. Images in which the pair was not tested (no to cells, for example) are not shown.

Examples

data(spicyTest)
spicyBoxPlot(spicyTest, rank = 1)
#> Ignoring unknown labels:
#> • size : "Relative weight"


data("diabetesData")
res <- spicy(diabetesData, condition = "stage", subject = "case", r = 50,
             from = "Tc", to = c("Th", "beta"))
spicyBoxPlot(res, from = "Tc", to = "Th")
#> Ignoring unknown labels:
#> • size : "Relative weight"