initGeneReport: initGeneReport
In GeneSurvey/TCGAGeneReport: Access to Gene Report Data

Description Usage Arguments Details Value Examples

Load the library/package and call initGeneReport(). This function sets up rJava. If you are on a server where the GENE_REPORT directory is on a different path, you can pass in a value to override the default of "/rsrch1/bcb/batcheffects/GENE_REPORT/lib". Note, the path is to the lib directory under GENE_REPORT. This is where the Java JAR files are kept.

1	initGeneReport(theParameters = "-Xms2400m")

theParameters

Parameters to Java. This allows you to adjust the arguments to the rJava Java VM. As noted when called, on our servers, using measurements other than m or larger than 42000 would fail. The HPC would take larger values of m.

Must be called before using other functions in package.

Nothing useful.