hpaVisPatho.Rd
Visualize the expression of genes of interest in each cancer.
hpaVisPatho( data = NULL, targetGene = NULL, targetCancer = NULL, color = c("#ffffb2", "#fecc5c", "#fd8d3c", "#e31a1c"), customTheme = FALSE )
data | Input the list object generated by |
---|---|
targetGene | Vector of strings of HGNC gene symbols. By default it is
set to |
targetCancer | Vector of strings of normal tissues. The function will plot all available cancer by default. |
color | Vector of 4 colors used to depict different expression levels. |
customTheme | Logical argument. If |
This function will return a ggplot2 plot object, which can be further modified if desirable. The pathology data is visualized as multiple bar graphs, one for each type of cancer. For each bar graph, x axis contains the inquired protein and y axis contains the proportion of patients.
Other visualization functions:
hpaVisSubcell()
,
hpaVisTissue()
,
hpaVis()
data("hpa_histology_data") geneList <- c('TP53', 'EGFR', 'CD44', 'PTEN', 'IDH1', 'IDH2', 'CYCS') cancerList <- c('breast cancer', 'glioma', 'melanoma') ## A typical function call hpaVisPatho(data=hpa_histology_data, targetGene=geneList)