showCancerStudy: List of cancer studies included in the cBioportal

In gmelloni/PrecisionTrialDesigner: A Tool to Analyze and Design NGS Based Custom Gene Panels

List of cancer studies included in the cBioportal

Description

Show all the possible cancer studies accepted by PrecisionTrialDrawer

Usage

showCancerStudy(tumor_type=NULL)

Arguments

tumor_type

a valid tumor type barcode in TCGA standard coding

Details

This method is a wrapper around getStudies and show all the cancer studies included in the cBioPortal. If you specify the tumor_type, follow the list of showTumorType. Even though the cancer studies are present, it doesn't mean that there are data for every alteration. A tumor type could have mutation data but not copynumber or viceversa. Furthermore, fusion data have a different source and could not be included in the list.

Value

A named vector of all the cancer studies available in cBioPortalData package that can be passed to the method getAlterations.

Author(s)

Giorgio Melloni, Alessandro Guida

See Also

getAlterations showTumorType getStudies

Examples

myCanStudies <- showCancerStudy()
head(myCanStudies)

gmelloni/PrecisionTrialDesigner documentation built on March 3, 2023, 6:10 a.m.