View source: R/variableGenesHeat.R
mostVariableHeat | R Documentation |
Plots heatmap showing the expression of most variable genes
mostVariableHeat(data, ntop = 50, a1 = NULL, a2 = NULL, n1 = NULL,
n2 = NULL)
data: |
normalized deseq matrix data (with varianceStablizing, rlog etc - eg. assay(vsd) |
ntop: |
how many genes to display (the <ntop> most variable genes) |
a1: |
annotation of the samples |
a2: |
annotation of the samples |
n1: |
name of annotation in a1 |
n2: |
name of annotation in a2 |
vst <- varianceStabilizingTransformation(dds)
mostVariableHeat(data = assay(vst),ntop = 100, a1 = colData$cellLine, a2 = colData$treatment,n1="Cell Line",n2="Treatment")
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