Man pages for genieBPC
Project GENIE BioPharma Collaborative Data Processing Pipeline
| check_genie_access | Check Access to GENIE Data |
| create_analytic_cohort | Select cohort of patients for analysis |
| dot-check_download_path | Check download_path user passed and create folder if needed |
| dot-get_and_query_file_url | Get URL for a given 'Synapse' file and download to local... |
| dot-get_env | Get an object from the genieBPC package environment... |
| dot-get_synapse_token | Retrieve a synapse token using username and password |
| dot-get_token_by_pat | Retrieve a synapse token using personal access token |
| dot-get_token_by_username | Retrieve a synapse token using username and password |
| dot-is_connected_to_genie | Check Synapse Login Status & Ability to Access Data |
| dot-pull_data_by_cohort | Function to retrieve data by synapse ID |
| dot-resolve_duplicates | Select unique NGS report when multiple are available |
| drug_regimen_list | List of Drug Regimen Names by Cohort |
| drug_regimen_sunburst | Visualize drug regimen sequences in a sunburst plot |
| genieBPC-package | genieBPC: Project GENIE BioPharma Collaborative Data... |
| genie_panels | Genomic Panels Included in GENIE BPC Data |
| nsclc_test_data | Simulated fake GENIE BPC data for function examples and tests |
| pull_data_synapse | Obtain clinical & genomic data files for GENIE BPC Project |
| regimen_abbreviations | List of Drug Regimen Abbreviations |
| select_unique_ngs | Selecting corresponding unique next generation sequencing... |
| set_synapse_credentials | Connect to 'Synapse' API |
| synapse_tables | 'Synapse' table IDs |
| synapse_version | Return list of available GENIE BPC data releases |
