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rlbarter / superheat

An r package for generating beautiful and customizable heatmaps
https://rlbarter.github.io/superheat/
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Fixed legend break for a series of heat maps for easy comparison #41

Open gowthamee opened 6 years ago

gowthamee commented 6 years ago

Hi, I am using legend.breaks and trying to generate multiple heat maps. My question is how to set the legend breaks, such that it stays at fixed positions, while generating a series of heat maps through if/for loop. This will help with easy comparison, as colors point to a specific value. Any help is appreciated.

Thanks, Gowthamee

rlbarter commented 6 years ago

Have you tried the legend.breaks argument? https://rlbarter.github.io/superheat/legend.html#legend-breaks

(ensure you're using the github version, rather than the CRAN version)

gowthamee commented 6 years ago

I use the GitHub version of superheat and I use the argument legend.breaks. Below is the code:

superheat(TermFoldCh, heat.col.scheme = "viridis", grid.hline = TRUE, grid.vline = TRUE, grid.hline.size = 0.4, grid.vline.size = 0.4, grid.hline.col = "white", grid.vline.col = "white", force.grid.hline = TRUE, pretty.order.rows = TRUE, row.dendrogram = TRUE, dist.method = "euclidean", legend = TRUE, legend.height = 0.1, legend.width = 0.5, legend.text.size = 5.0, legend.vspace = 0.0000000001, legend.breaks = c(-20,-15, -10, -5, -2.5, 0, 2.5, 5, 10, 15, 20), bottom.label.text.alignment = "center", bottom.label.text.col = "black", bottom.label.text.size = 2.0, bottom.label.text.angle = 0, bottom.label.size = 0.1, bottom.label = "variable", bottom.label.col = "white", left.label.size = 0.25, left.label.text.size = 4.0, left.label.text.col = "black", left.label = "variable", left.label.col = "white", left.label.text.alignment = "right", force.left.label = TRUE, title = substr(TermName, start = 1, stop = 51) title.size = 4.0, title.alignment = "center", padding = 0.5, print.plot = TRUE)

      dev.off()

However, in the figure generated by the code, the legend does not have the full range of numbers included in the legend.breaks, and hence it varies between the heat maps, which makes it difficult to compare heatmaps, as colors on different heat maps point to a different fold change values.

thanks !!!

rlbarter commented 6 years ago

Perhaps also set the heat.lim argument? It would be great if you could provide a reproducible example so I can play with it myself (I don't have access to the TermFoldCh matrix).