```
# NOT RUN {
# }
# NOT RUN {
# mtcars
# x <- heatmapr(mtcars)
library(heatmaply)
heatmaply(iris[,-5], k_row = 3, k_col = 2)
heatmaply(cor(iris[,-5]))
heatmaply(cor(iris[,-5]), limits = c(-1,1))
heatmaply(mtcars, k_row = 3, k_col = 2)
# heatmaply(mtcars, k_row = 3, k_col = 2, grid_color = "white")
heatmaply(mtcars, k_row = 3, k_col = 2, grid_gap = 1)
# make sure there is enough room for the labels:
heatmaply(mtcars, margins = c(40, 130))
# this is the same as using:
heatmaply(mtcars) %>% layout(margin = list(l = 130, b = 40))
# control text angle
heatmaply(mtcars, column_text_angle = 90, margins = c(40, 130))
# the same as using srtCol:
# heatmaply(mtcars, srtCol = 90) %>% layout(margin = list(l = 130, b = 40))
x <- mtcars
# different colors
heatmaply(x, colors = heat.colors(200))
# using special scale_fill_gradient_fun colors
heatmaply(x, scale_fill_gradient_fun = scale_color_gradient())
# We can join two heatmaps together:
library(heatmaply)
hm1 <- heatmaply(mtcars, margins = c(40, 130))
hm2 <- heatmaply(mtcars, scale = "col", margins = c(40, 130))
subplot(hm1, hm2, margin = .2)
# If we want to share the Y axis, then it is risky to keep any of the dendrograms:
library(heatmaply)
hm1 <- heatmaply(mtcars, Colv = FALSE, Rowv = FALSE, margins = c(40, 130))
hm2 <- heatmaply(mtcars, scale = "col" , Colv = FALSE, Rowv = FALSE,
margins = c(40, 130))
subplot(hm1, hm2, margin = .02, shareY = TRUE)
# We can save heatmaply as an HTML file by using:
heatmaply(iris[,-5], file = "heatmaply_iris.html")
# or a png/pdf/jpeg file using:
heatmaply(iris[,-5], file = "heatmaply_iris.png")
# or just doing it in one go:
heatmaply(iris[,-5], file = c("heatmaply_iris.html", "heatmaply_iris.png") )
# If we don't want the HTML to be selfcontained, we can use the following:
library(heatmaply)
library(htmlwidgets)
heatmaply(iris[,-5]) %>%
saveWidget(file="heatmaply_iris.html",selfcontained = FALSE)
# Example for using RowSideColors
x <- as.matrix(datasets::mtcars)
rc <- colorspace::rainbow_hcl(nrow(x))
library(gplots)
library(viridis)
heatmap.2(x, trace = "none", col = viridis(100),
RowSideColors=rc)
heatmaply(x, seriate = "mean",
RowSideColors=rc)
heatmaply(x[,-c(8,9)], seriate = "mean",
col_side_colors = c(rep(0,5), rep(1,4)),
row_side_colors = x[,8:9])
heatmaply(x[,-c(8,9)], seriate = "mean",
col_side_colors = data.frame(a=c(rep(0,5), rep(1,4))),
row_side_colors = x[,8:9])
## Example of using Rowv And Colv for custumized dendrograms.
x <- as.matrix(datasets::mtcars)
# now let's spice up the dendrograms a bit:
library(dendextend)
row_dend <- x %>% dist %>% hclust %>% as.dendrogram %>%
set("branches_k_color", k = 3) %>% set("branches_lwd", 4) %>%
ladderize
# rotate_DendSer(ser_weight = dist(x))
col_dend <- x %>% t %>% dist %>% hclust %>% as.dendrogram %>%
set("branches_k_color", k = 2) %>% set("branches_lwd", 4) %>%
ladderize
# rotate_DendSer(ser_weight = dist(t(x)))
heatmaply(x, Rowv = row_dend, Colv = col_dend)
heatmaply(is.na10(airquality))
heatmaply(is.na10(airquality), grid_gap = 1)
# grid_gap can handle quite large data matrix
heatmaply(matrix(1:10000,100,100), k_row = 3, k_col = 3, grid_gap = 1)
# Examples of playing with font size:
heatmaply(mtcars, fontsize_col = 20, fontsize_row = 5, margin = c(100,90))
# Example for using subplot_width/subplot_height
heatmaply(percentize(mtcars),
subplot_widths=c(0.6, 0.4),
subplot_heights=c(0.05, 0.95))
# Example of removing labels and thus making the plot faster
heatmaply(iris, showticklabels = c(T,F), margins = c(80,10))
# this is what allows for a much larger matrix to be printed:
set.seed(2017-05-18)
large_x <- matrix(rnorm(19), 1000,100)
heatmaply(large_x, dendrogram = F, showticklabels = F, margins = c(1,1))
# }
# NOT RUN {
heatmaply_na(airquality)
# }
# NOT RUN {
heatmaply_cor(cor(mtcars))
# }
```

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