Description Usage Arguments Details Value Author(s) References Examples
Plot the binary differential expression matrix transformed by bi.deg
1 2 3 |
input |
a 'deg' object returned by |
ann |
a data.frame for the patient annotation |
col.order |
the order of column in heatmap |
show.genes |
the gene ids to plot |
max.n |
the maximum number of genes to plot |
up.col |
the color for up-regulated genes |
down.col |
the color for down-regulated genes |
This function applied the function of oncoPrint from 'ComplexHeatmap' to dispaly ownership of the DEGs. The output is a heatmap plots where the genes with maximum observations are showed.
A heatmap plot
Guofeng Meng
Gu Z, Eils R and Schlesner M (2016). Complex heatmaps reveal patterns and correlations in multidimensional genomic data. Bioinformatics.
1 2 3 4 5 6 7 | ## Not run:
Plot(deg,er.ann, max.n=15)
Plot(res.deg, er.ann, max.n=15)
Plot(res.deg, ann=er.ann, show.genes=c("ESR1","FOXA1","GATA3"))
Plot(res.deg, ann=er.ann, up.col="#008000", down.col="#CD5B45")
## End(Not run)
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