Comments (4)
Which version are you using. Try the one on the devel
branch on Github.
You will need to install the develop
version of pkgmaker
as well.
Have a look at the aheatmap
vignette.
from nmf.
I've read the vignette, but I didn't see an option to change the line width of the tree. Does it require passing an option to the dendextend
package?
from nmf.
You can pass a pre-formated dendrogram to Rowv
or Colv
(top of page 5 in the vignettes, which I agree does not show the right plot. Will fix this).
Some formatting options are built-in aheatmap
, but there is a lot of other neat things you can do with dendextend
from @talgalili.
# data
x <- rmatrix(20, 10)
# extract clustering or create it externally
a <- aheatmap(x)
hc <- a$Colv
# hc <- as.dendrogram(hclust(dist(t(x))))
# pre-format
library(dendextend)
hc <- set("nodes_pch", c(19,1,4)) %>%
set("nodes_cex", c(2,1,2)) %>%
set("nodes_col", c(3,4))
hc <- hc %>% set("branches_lwd", c(4,1)) %>%
set("branches_lty", c(1,1,3)) %>%
set("branches_col", c(1,2,3))
# plot
aheatmap(x, Colv = hc, Rowv = FALSE, main = "Custom dendrogram")
from nmf.
Dear @renozao ,
Thank you for letting me know. I now added a mention of using aheatmap with dendextend in its vignette:
talgalili/dendextend@9d75974
With regards,
Tal
from nmf.
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from nmf.