cpObj: Example of a cancer panel

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

Example of a cancer panel

Description

A CancerPanel object used in PrecisionTrailDrawer

Usage

data(cpObj)

Format

A CancerPanel object with 3 slots and data from every cBioportal study on lung adenocarcinoma (LUAD) and breast carcinoma (BRCA):

arguments:

Object of class "list" containing panel contents information. it id filled at the panel construction.

dataFull:

Object of class "list" containing a slot for every alteration type. it is filled with getAlterations method and contains all the alterations for all the genes in the panel and every tumor type requested.

dataSubset:

Object of class "list" containing a slot for every alteration type. it is filled with subsetAlterations method and reports all the alterations for every requested specific alteration. All slots have the same data.frame layout.

Source

data origin for BRCA and LUAD

Examples

#Load cpObj and show its structure
data(cpObj)
str(cpObj)

gmelloni/PrecisionTrialDrawer documentation built on March 4, 2023, 1:48 a.m.