I'd like to make a facetted plot, with the p-values from my emmeans() table added using stat_pvalue_manual(). However, I can't seem to get them to facet. Any help would be very welcome!
Here is some demo data:
demo_data <- structure(list(tissue = structure(c(1L, 1L, 1L, 1L, 1L, 1L, 1L,
1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 3L, 3L, 3L, 3L, 3L, 3L,
3L, 3L, 3L, 3L, 3L, 3L, 3L, 3L, 3L, 3L, 3L), levels = c("Cortex",
"Striatum", "Brainstem", "Spinal cord"), class = "factor"), treatment = structure(c(1L,
1L, 1L, 1L, 2L, 2L, 2L, 2L, 3L, 3L, 3L, 3L, 4L, 4L, 4L, 4L, 4L,
1L, 1L, 1L, 1L, 2L, 2L, 2L, 2L, 3L, 3L, 3L, 3L, 4L, 4L, 4L, 4L,
4L), levels = c("Vehicle", "3ug", "10ug", "30ug"), class = "factor"),
level = c(95.55770146, 106.41916, 95.99984979, 102.0232887,
93.79787091, 95.49592139, 67.69702761, 91.06655218, 55.14942341,
90.74452771, 87.37290887, 93.64040623, 43.07433708, 51.11824551,
38.74906918, 41.70615026, 58.38525145, 96.34090317, 103.6658548,
98.55401948, 101.4392226, 81.43533635, 80.3636441, 75.10048942,
87.51421957, 49.99619784, 57.18770233, 54.19956166, 59.01564607,
22.62269918, 26.99647643, 17.39055145, 26.10645416, 20.97243233
)), row.names = c(NA, -34L), class = c("tbl_df", "tbl", "data.frame"
))
Here are the comparisons from 'emmeans()':
demo_contrasts <- structure(list(tissue = c("Cortex", "Cortex", "Cortex"), contrast = c("Vehicle - 30ug",
"3ug - 30ug", "10ug - 30ug"), estimate = c(53.3933892915, 40.4077323265,
35.120205859), SE = c(7.90968646506267, 7.90968646506267, 7.90968646506267
), df = c(13, 13, 13), t.ratio = c(6.75037999639306, 5.10863894605459,
4.44015145405915), p.value = c("7.1e-05", "1.0e-03", "3.3e-03"
), p.signif = structure(c("***", "**", "**"), class = "noquote"),
group1 = c("Vehicle", "3ug", "10ug"), group2 = c("30ug",
"30ug", "30ug"), y.position = c(131.9999999835, 143.999999982,
155.9999999805)), row.names = c(NA, -3L), class = "data.frame")
And here is how I'm trying to plot it:
ggplot(demo_data, aes(x = treatment, y = level)) +
facet_wrap(~ tissue) +
stat_summary(aes(fill = treatment),
fun = mean, colour = "black", geom = "bar") +
geom_jitter(aes(fill = treatment),
shape = 21, colour = "black",
width = 0.1, height = 0,
size = point_size) +
stat_summary(fun.data = mean_se,
geom = "errorbar", width = 0.2) +
stat_pvalue_manual(demo_contrasts,
label = "{p.signif}",
tip.length = 0.01,
hide.ns = TRUE,
size = point_size + 3)
As you can see, it doesn't seem to facet!
