Query the Breeding Management System(s)

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Documentation for package ‘QBMS’ version 1.5.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

brapi_get_call	Internal Function for Core BrAPI GET Calls
brapi_headers	Generate Common HTTP Headers for API Requests
brapi_map	BrAPI Mapping Table
brapi_post_search_allelematrix	Internal Function Used for Core BrAPI POST Calls (Allele Matrix Search)
brapi_post_search_call	Internal Function Used for Core BrAPI POST Calls
build_pedigree_table	Building Pedigree Table Recursively
calc_biovars	Calculate the Bioclimatic Variables
debug_qbms	Debug Internal QBMS Status Object
get_async_page	Asynchronously Fetch a Single API Page
get_async_pages	Asynchronously Fetch Multiple API Pages
get_brapi_url	Get the BrAPI Endpoint URL for a given QBMS function
get_germplasm_attributes	Retrieve Attributes for a Specified Germplasm
get_germplasm_data	Retrieve Observations Data for a Specified Germplasm.
get_germplasm_id	Get Germplasm ID for a Specified Germplasm Name
get_germplasm_list	Get the Germplasm List of the Current Active Study
get_hwsd2	Get HWSD v2 Soil Data for a Given Location(s)
get_login_details	Login Pop-Up Window
get_parents	Get Direct Parents
get_pedigree_table	Get the Pedigree Table
get_program_studies	Get the List of Trials, Studies, and Locations Information for the Current Selected Program
get_program_trials	Retrieve the List of Trials for the Active Breeding Program
get_qbms_connection	Get the QBMS Connection
get_study_data	Get the Observations Data of the Current Active Study
get_study_info	Get the Details/Metadata of the Current Active Study
get_terraclimate	Get TerraClimate Data for a Given Coordinate(s)
get_trial_data	Get the Observations Data of the Current Active Trial
get_trial_obs_ontology	Get the Traits Ontology/Metadata of the Current Active Trial
gigwa_get_allelematrix	Get Markers Matrix in the Selected GIGWA Run
gigwa_get_markers	Get Markers Map in the Selected GIGWA Run
gigwa_get_metadata	Get the Metadata of the Current Active GIGWA Run
gigwa_get_samples	Get the Samples List of the Current Active GIGWA Project
gigwa_get_sequences	Get the Sequences of the Current Active GIGWA Project
gigwa_get_variants	Get Available Variants in the Selected GIGWA Run
gigwa_list_dbs	List GIGWA Databases
gigwa_list_projects	Get the List of All Projects in the Selected GIGWA Database
gigwa_list_runs	Get the List of the Run Names Available in the Selected GIGWA Project
gigwa_set_db	Set the Current Active GIGWA Database by Name
gigwa_set_project	Set the Current Active GIGWA Project
gigwa_set_run	Set the Current Active GIGWA Run
ini_hwsd2	Download and Setup HWSD v2.0 Data Files to Extract their Data Offline
ini_terraclimate	Download TerraClimate netCDF Data Files to Extract their Data Offline
list_crops	Retrieve Supported Crops from the Server
list_locations	Get the List of Locations Information of the Current Selected Crop
list_programs	Retrieve Breeding Programs for the Active Crop
list_studies	Get the List of Studies in the Current Active Trial
list_trials	List Trials in the Current Active Breeding Program
login_bms	Login to the Server
login_breedbase	Login to the BreedBase Server
login_gigwa	Login to the GIGWA Server
login_oauth2	Login using OAuth 2.0 Authentication
rbindlistx	Make One Data.Table from a List of Many
rbindx	Combine Data Frames by Row, Filling in Missing Columns
scan_brapi_endpoints	Scan BrAPI Endpoints
set_crop	Set the Current Active Crop
set_program	Set the Current Active Breeding Program
set_qbms_config	Configure BMS Server Settings
set_qbms_connection	Set the QBMS Connection
set_study	Set the Current Active Study
set_token	Set Access Token Response
set_trial	Set the Current Active Trial