impact_gene_info

Dataframe labeling all genes included in IMPACT panels along with their corresponding
platform ID and Entrez ID.

datasets

Provides R users with direct access to genomic and clinical data from the 'cBioPortal' web resource via user-friendly
functions that wrap 'cBioPortal's' existing API endpoints <https://www.cbioportal.org/api/swagger-ui/index.html>. Users can browse and query genomic data on mutations,
copy number alterations and fusions, as well as data on tumor mutational burden ('TMB'),
microsatellite instability status ('MSI'), 'FACETS' and select clinical data points (depending on the study).
See <https://www.cbioportal.org/> and Gao et al., (2013) <doi:10.1126/scisignal.2004088> for more information on the cBioPortal web resource.

Karissa Whiting

cbioportalR

Browse and Query Clinical and Genomic Data from cBioPortal

impact_gene_info function

A data frame with 470 genes<dl>
<dt>hugo_symbol</dt>
<dd>Factor w/ 574 levels,
Column containing all HUGO symbols genes included in IMPACT</dd><dt>entrez_id</dt>
<dd>Integer, contains all Entrez IDs for genes included in IMPACT</dd><dt>platform_341</dt>
<dd>Character, indicates whether each gene was included in
IMPACT platform 341. Options are <code>included</code> and <code>not included</code></dd><dt>platform_410</dt>
<dd>Character, indicates whether each gene was included in
IMPACT platform 410. Options are <code>included</code> and <code>not included</code></dd><dt>platform_468</dt>
<dd>Character, indicates whether each gene was included in
IMPACT platform 468. Options are <code>included</code> and <code>not included</code></dd><dt>alias</dt>
<dd>A nested dataframe of aliases for each gene and corresponding entrez gene ids for aliases if they exist</dd>
</dl>

Format

IMPACT Gene Meta Data — impact_gene_info

A data frame with 470 genes<dl>
<dt>hugo_symbol</dt>
<dd>Factor w/ 574 levels,
Column containing all HUGO symbols genes included in IMPACT</dd>

<dt>entrez_id</dt>
<dd>Integer, contains all Entrez IDs for genes included in IMPACT</dd>

<dt>platform_341</dt>
<dd>Character, indicates whether each gene was included in
IMPACT platform 341. Options are <code>included</code> and <code>not included</code></dd>

<dt>platform_410</dt>
<dd>Character, indicates whether each gene was included in
IMPACT platform 410. Options are <code>included</code> and <code>not included</code></dd>

<dt>platform_468</dt>
<dd>Character, indicates whether each gene was included in
IMPACT platform 468. Options are <code>included</code> and <code>not included</code></dd>

<dt>alias</dt>
<dd>A nested dataframe of aliases for each gene and corresponding entrez gene ids for aliases if they exist</dd>


</dl>

impact_gene_info: IMPACT Gene Meta Data

Description

Usage

Arguments

Format