cbioportalR (version 1.1.0)

get_clinical_by_study: Get all available clinical data for a specified study

Description

Returns all sample-level and patient-level clinical data for a given study

Usage

get_clinical_by_study(
  study_id = NULL,
  clinical_attribute = NULL,
  base_url = NULL
)

Value

a dataframe of all available clinical attributes and their values

Arguments

study_id

study ID

clinical_attribute

one or more clinical attributes for your study. If none provided, will return all attributes available for that study (available_clinical_attributes(<study_id>))

base_url

The database URL to query. If NULL will default to URL set with set_cbioportal_db(<your_db>)

Examples

if (FALSE) {
get_clinical_by_study(study_id = "acc_tcga",
 clinical_attribute = "CANCER_TYPE", base_url = 'www.cbioportal.org/api')

get_clinical_by_study(study_id = "acc_tcga", base_url = 'www.cbioportal.org/api')
}