AMARETTO_VisualizeModule {AMARETTO} | R Documentation |
Function to visualize the gene modules
AMARETTO_VisualizeModule(AMARETTOinit, AMARETTOresults, ProcessedData, ModuleNr, show_row_names = FALSE, SAMPLE_annotation = NULL, ID = NULL, order_samples = NULL)
AMARETTOinit |
List output from AMARETTO_Initialize(). |
AMARETTOresults |
List output from AMARETTO_Run(). |
ProcessedData |
List of processed input data |
ModuleNr |
Module number to visualize |
show_row_names |
If TRUE, row names will be shown on the plot. |
SAMPLE_annotation |
Matrix or Dataframe with sample annotation |
ID |
Column used as sample name |
order_samples |
Order samples in heatmap by mean or by clustering |
result
data('ProcessedDataLIHC') AMARETTOinit <- AMARETTO_Initialize(ProcessedData = ProcessedDataLIHC, NrModules = 2, VarPercentage = 50) AMARETTOresults <- AMARETTO_Run(AMARETTOinit) AMARETTO_VisualizeModule(AMARETTOinit = AMARETTOinit,AMARETTOresults = AMARETTOresults, ProcessedData = ProcessedDataLIHC, ModuleNr = 1)