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TCGAretriever (version 1.9.1)

Retrieve Genomic and Clinical Data from CBioPortal Including TCGA Data

Description

The Cancer Genome Atlas (TCGA) is a program aimed at improving our understanding of Cancer Biology. Several TCGA Datasets are available online. 'TCGAretriever' helps accessing and downloading TCGA data hosted on 'cBioPortal' via its Web Interface (see for more information).

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Version

Install

install.packages('TCGAretriever')

Monthly Downloads

193

Version

1.9.1

License

GPL-3

Maintainer

Damiano Fantini

Last Published

January 23rd, 2024

Functions in TCGAretriever (1.9.1)

Samples Included in a List of Samples.

get_cancer_types

Retrieve Cancer Types.

Retrieve Case List Available for a Specific Cancer Study.

blcaOutputExamples

TCGAretriever Examples

get_molecular_data

Retrieve Molecular Data corresponding to a Genetic Profile of Interest.

get_genetic_profiles

Retrieve Genetic Profiles for a TCGA Study of Interest

Split Numeric Vectors in Groups.

get_mutation_data

Retrieve Mutation Data corresponding to a Genetic Profile of Interest.

get_gene_identifiers

Retrieve All Gene Identifiers

get_cancer_studies

Retrieve the List of Cancer Studies Available at cbioportal.

fetch_all_tcgadata

Fetch All Molecular Data for a Cancer Profile of Interest.

TCGAretriever-package

Retrieve Genomic and Clinical Data from CBioPortal

get_clinical_data

Retrieve Clinical Information for a Cancer Study.

Core Query Engine