hpaVisTissue.Rd
Visualize the expression of protein of interest in each target tissue by cell types.
hpaVisTissue( data = NULL, targetGene = NULL, targetTissue = NULL, targetCellType = 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 |
targetTissue | Vector of strings of normal tissues. Default to breast. |
targetCellType | Vector of strings of normal cell types. Default to all. |
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 tissue data is visualized as a heatmap: x axis contains inquired protein and y axis contains tissue/cells of interest.
Other visualization functions:
hpaVisPatho()
,
hpaVisSubcell()
,
hpaVis()
data("hpa_histology_data") geneList <- c('TP53', 'EGFR', 'CD44', 'PTEN', 'IDH1', 'IDH2', 'CYCS') tissueList <- c('breast', 'cerebellum', 'skin 1') ## A typical function call hpaVisTissue(data=hpa_histology_data, targetGene=geneList, targetTissue=tissueList)#>#>