hpaVisPatho {HPAanalyze} | R Documentation |
Visualize the expression of genes of interest in each cancer.
hpaVisPatho(data, targetGene, 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. |
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_downloaded_histology_v18") geneList <- c('TP53', 'EGFR', 'CD44', 'PTEN', 'IDH1', 'IDH2', 'CYCS') cancerList <- c('breast cancer', 'glioma', 'melanoma') ## A typical function call hpaVisPatho(data=hpa_downloaded_histology_v18, targetGene=geneList)