View source: R/plot_taxa_heatmap.R
plot_taxa_heatmap | R Documentation |
phyloseq-class
and pheatmap
Plot heatmap using phyloseq-class
object as input.
plot_taxa_heatmap( x, subset.top, transformation, VariableA, heatcolors = NULL, ... )
x |
|
subset.top |
either NA or number of Top OTUs to use for plotting. |
transformation |
either 'log10', 'clr','Z', 'compositional', or NA |
VariableA |
main variable of Interest. |
heatcolors |
is the option for colors in |
... |
Arguments to be passed |
A pheatmap
plot object.
Sudarshan A. Shetty (sudarshanshetty9@gmail.com)
library(microbiomeutilities) library(viridis) library(RColorBrewer) data("zackular2014") ps0 <- zackular2014 heat.sample <- plot_taxa_heatmap(ps0, subset.top = 20, VariableA = "DiseaseState", heatcolors = colorRampPalette(rev(brewer.pal(n = 7, name = "RdYlBu")))(100), transformation = "log10" )
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