This is the main function of the package, meant to prepare mutation data to be visualized by the discoverInteractiveAnalytics application.
1 2 | buildAppFile(mtdt, path_to_file, q.threshold = 0.01,
mutation_effects = NULL, res.combined = NULL)
|
mtdt |
An indicator matrix, of the same type used in the DISCOVER test. The dimensions should be n genes (rows) by m columns (samples), with cells being 0 (non-mutated) or 1 (mutated). |
path_to_file |
Where to save the results. This file can be uploaded to the associated application. |
q.threshold |
The FDR cutoff used by the discover test, defaults to 0.01. |
mutation_effects |
Supply a list of mutations, with a column "gene" and "functionalEffect" to include mutation effects in the visualization. This is not necessary for the majority of functionality, therefore this function will run if it is not supplied. |
network.name |
The name of the network that will be displayed within the application. |
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.