plot_heatmap {dSimer} | R Documentation

## similarity matrix heatmap plotting

### Description

plot heatmap of a disease similarity matrix

### Usage

    plot_heatmap(simmat, xlab = "", ylab = "", color.low = "white",
      color.high = "red", labs = TRUE, digits = 2, labs.size = 3,
      font.size = 14)

### Arguments

`simmat` | a similarity matrix
`xlab` | xlab
`ylab` | ylab
`color.low` | color of low value
`color.high` | color of high value
`labs` | logical, add text label or not
`digits` | round digit numbers
`labs.size` | lable size
`font.size` | font size

### Value

a ggplot object

### Author(s)

Peng Ni, Min Li

### References

Yu G, Wang L G, Yan G R, et al. DOSE: an R/Bioconductor package for disease ontology semantic and enrichment analysis[J]. Bioinformatics, 2015, 31(4): 608-609.

### Examples

    data(d2g_separation)
    data(interactome)

    graph_interactome<-graph.data.frame(interactome,directed=FALSE)
    ds<-c("myocardial ischemia","myocardial infarction","coronary artery disease",
     "cerebrovascular disorders","arthritis, rheumatoid","diabetes mellitus, type 1",
     "autoimmune diseases of the nervous system","demyelinating autoimmune diseases, cns",
     "respiratory hypersensitivity","asthma","retinitis pigmentosa",
     "retinal degeneration","macular degeneration")

    sep<-Separation(ds,ds,d2g_separation,graph_interactome)
    sim<-Separation2Similarity(sep)
    plot_heatmap(sim)

[Package dSimer version 1.8.0 Index]