Download Data

Information Required for Data Download

Information About Datasets from TCGA Project

• checkTCGA

Download TCGA Data

• downloadTCGA

Information About Cohorts from TCGA Project

• infoTCGA

Read TCGA data to the tidy Format

• readTCGA

Existing Data Packages

Data Packages Available on Bioconductor

Convert Data from RTCGA Family to Bioconductor Classes

• convertPANCAN12
• convertTCGA

Create RTCGA.dataType.releaseDate-like Packages with TCGA Datasets

• createTCGA

RTCGA - The Family of R Packages with Data from The Cancer Genome Atlas Study

• datasetsTCGA

Install Data Packages from RTCGA Family

• installTCGA

Manipulate Data

Gather Expressions for TCGA Datasets

• expressionsTCGA

Gather Mutations for TCGA Datasets

• mutationsTCGA

Extract Survival Information from Datasets Included in RTCGA.clinical and RTCGA.clinical.20160128 Packages

• survivalTCGA

Visualize Data

Create Boxplots for TCGA Datasets

• boxplotTCGA

Create Heatmaps for TCGA Datasets

• heatmapTCGA

Plot Kaplan-Meier Estimates of Survival Curves for Survival Data

• kmTCGA

Plot Two Main Components of Principal Component Analysis

• pcaTCGA

Miscellaneous

RTCGA Theme for ggplot2

• theme_RTCGA