available_profiles

Get Available Genomic Profiles For a Study or Database

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

available_profiles function

<dl><dt>study_id</dt>
<dd>A character vector of length 1 indicating study_id.
See <code>get_studies()</code> to see all available studies for your URL. If <code>NULL</code>, it will
return all profiles for your current database url</dd>
<dt>base_url</dt>
<dd>The database URL to query.
If <code>NULL</code> will default to URL set with <code>set_cbioportal_db(&lt;your_db&gt;)</code></dd></dl>

Arguments

Get Available Genomic Profiles For a Study or Database — available_profiles

<dl>

<dt>study_id</dt>
<dd>A character vector of length 1 indicating study_id.
See <code>get_studies()</code> to see all available studies for your URL. If <code>NULL</code>, it will
return all profiles for your current database url</dd>


<dt>base_url</dt>
<dd>The database URL to query.
If <code>NULL</code> will default to URL set with <code>set_cbioportal_db(&lt;your_db&gt;)</code></dd>

</dl>

available_profiles: Get Available Genomic Profiles For a Study or Database

Description

Usage

Value

Arguments

Examples