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TCGAretriever (version 1.7)

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

1.7

License

GPL-2

Maintainer

Damiano Fantini

Last Published

July 10th, 2023

Functions in TCGAretriever (1.7)

TCGAretriever-package

Retrieve Genomic and Clinical Data from CBioPortal
get_profile_data

Retrieve TCGA Data corresponding to a Specific Genetic Profile of Interest
show_head

Return a Subset of an Object
make_groups

Split Numeric Vectors in Groups
get_cancer_studies

Retrieve a List of Cancer Studies Available at TCGA
expand_cases

Explode TCGA Case Identifiers from a TCGA Study
get_cancer_types

Retrieve a List of Cancer Types as Defined by the TCGA Guidelines
fetch_all_tcgadata

Recursively Fetch All Data Included in a TCGA Study Subset
get_genetic_profiles

Retrieve Genetic Profiles for a TCGA Study of Interest
get_case_lists

Retrieve All Case List Available for a Specific TCGA Study
get_clinical_data

Retrieve Clinical Information from a TCGA Study
get_ext_mutation

Retrieve Extended Information About DNA Mutations from TCGA
basic_tcga_query

TCGA Core Query Engine