R: Genesys PGR Client

# Genesys PGR Client

## Documentation for package ‘genesysr’ version 2.2.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

api2_url | Get partial API v2 URL for the provided path
authorization | Provide OAuth2 token to use for authorization with Genesys
check_country | Run Land-or-Sea check on MCPD data. Uploads only rows where ORIGCTY, DECLATITUDE and DECLONGITUDE are provided.
check_landorsea | Run Land-or-Sea check on MCPD data using https://validator.genesys-pgr.org. Uploads only rows where DECLATITUDE and DECLONGITUDE are provided. In practice it is better to use 'check_country' if ORIGCTY data exists.
check_taxonomy | Check MCPD taxonomic data (GENUS, SPECIES, SPAUTHOR, SUBTAXA, SUBTAUTHOR) using https://validator.genesys-pgr.org.
client_login | Login to Genesys as a service client (system-to-system)
download_mcpd | Download passport data for one genebank in Excel format and save it to disk
download_pdci | Download PDCI data for one genebank in Excel format and save it to disk.
filter_DOI | Add filter on accession DOI
filter_GENUS | Add filter by genus
filter_INSTCODE | Add filter by genus
filter_ORIGCTY | Add filter on Country of origin of material
filter_SAMPSTAT | Add filter on Biological status of sample
filter_SPECIES | Add filter on specific epithet
get_accessions | Get accession passport data as a data table.
list_crops | Fetch Genesys crops. Note that the list of Genesys crops does not fully correspond with various CROPNAME in MCPD provided by genebanks.
list_institutes | List FAO WIEWS institutes.
list_species | Fetch taxonomic data of selected accessions.
mcpd_filter | Make or adjust filter using MCPD terminology
me | Who am i? Loads and prints the user profile from Genesys as JSON. You need to be logged in.
print_setup | Print Genesys client configuration
SELECT_ALL_FIELDS | List of all supported passport data fields
SELECT_GEO_FIELDS | List of passport data fields relevant for GIS analysis
SELECT_INFO_FIELDS | List of basic passport data fields
setup | Configure the Genesys environment
setup_production | Setup for Genesys Production
setup_sandbox | Setup for Genesys Sandbox
user_login | Login to Genesys as a user