genesysr2.1.1 package

Genesys PGR Client

api1_url

Get partial API v1 URL for the provided path

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, D...

check_landorsea

Run Land-or-Sea check on MCPD data using https://validator.genesys-pgr...

check_taxonomy

Check MCPD taxonomic data (GENUS, SPECIES, SPAUTHOR, SUBTAXA, SUBTAUTH...

client_login

Login to Genesys as a service client (system-to-system)

dot-check_auth

Ensure that environment has OAuth token

dot-fetch_accessions_page

Fetch accession passport data page.

dot-fetch_csv_page

Fetch a page of data from Genesys

dot-fetch_json_page

Fetch a page of data from Genesys

dot-list_accessions_page

List accession passport data (paginated)

dot-MAX_ALLOWED_PAGES

Max pages to retrieve

dot-onLoad

Configure package defaults on load

dot-post

HTTP POST method

download_mcpd

Download passport data for one genebank in Excel format and save it to...

download_pdci

Download PDCI data for one genebank in Excel format and save it to dis...

fetch_accessions

Fetch accession passport data and return the paged data structure for ...

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 full...

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 ...

print_setup

Print Genesys client configuration

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

Access data on plant genetic resources from genebanks around the world published on Genesys (<https://www.genesys-pgr.org>). Your use of data is subject to terms and conditions available at <https://www.genesys-pgr.org/content/legal/terms>.

  • Maintainer: Matija Obreza
  • License: Apache License 2.0
  • Last published: 2024-02-23