Package: wddsWizard 0.2.5

Collin Schwantes

wddsWizard: Data Wizard for a Minimal Wildlife Disease Data Standard

Facilitates compliance with and use of the Wildlife Disease Data Standard stored on Zenodo <https://doi.org/10.5281/zenodo.15020049>. It allows users to restructure and validate datasets.

Authors:Collin Schwantes [aut, cre]

wddsWizard_0.2.5.tar.gz
wddsWizard_0.2.5.zip(r-4.7)wddsWizard_0.2.5.zip(r-4.6)wddsWizard_0.2.5.zip(r-4.5)
wddsWizard_0.2.5.tgz(r-4.6-any)wddsWizard_0.2.5.tgz(r-4.5-any)
wddsWizard_0.2.5.tar.gz(r-4.7-any)wddsWizard_0.2.5.tar.gz(r-4.6-any)
wddsWizard_0.2.5.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
wddsWizard/json (API)
NEWS

# Install 'wddsWizard' in R:

install.packages('wddsWizard', repos = c('https://viralemergence.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/viralemergence/wddswizard/issues

Pkgdown/docs site:https://viralemergence.github.io

Datasets:

becker_disease_data - Becker et al. dataset
becker_project_metadata - Becker et al. project metadata
datacite_schema - Datacite Data Stadnard
disease_data_required_fields - Required fields in the disease data object
disease_data_schema - Wildlife Disease Data Standard - data
minimal_disease_data - An example of minimal disease data
minimal_project_metadata - An example of minimal project metadata
project_metadata_required_fields - Required fields in the project metadata object
project_metadata_schema - Wildlife Disease Data Standard - project_metadata
schema_properties - Wildlife Disease Data Standard - schema properties
schema_required_fields - Wildlife Disease Data Standard required fields
schema_terms - Wildlife Disease Data Standard - schema terms
spdx_licenses - Data frame of SPDX licenses
wdds_schema - Wildlife Disease Data Standard
wdds_to_dcmi_map - WDDS to DCMI metadata mapping
wdds_to_pharos_map - WDDS to PHAROS metadata mapping

On CRAN:

software

4.50 score 7 scripts 45 exports 37 dependencies

Last updated from:46e597a2ea. Checks:7 ERROR, 2 OK. Indexed: yes.

Target	Result	Time
linux-devel-x86_64	ERROR	229
source / vignettes	OK	190
linux-release-x86_64	ERROR	212
macos-release-arm64	ERROR	208
macos-oldrel-arm64	ERROR	188
windows-devel	ERROR	181
windows-release	ERROR	179
windows-oldrel	ERROR	164
wasm-release	OK	136

Exports:batch_download_deposit_versions clean_field_names create_schema_docs download_deposit_version expand_tidy_dfs extract_metadata_from_doi extract_metadata_oa generate_metadata_csv generate_repeat_dfs get_entity get_required_fields list_deposit_versions make_simple_df na_to_blank paste_reduce paste_reduce_ul prep_affiliation prep_array prep_array_objects prep_atomic prep_creators prep_data prep_descriptions prep_for_json prep_from_metadata_template prep_fundingReferences prep_identifier prep_language prep_methodology prep_methods prep_nameIdentifiers prep_object prep_publicationYear prep_relatedIdentifiers prep_rights prep_subjects prep_titles sanitize_version translate_to_dcmi use_wdds_template wdds_data_templates wdds_example_data wdds_json wdds_to_dcmi wdds_to_pharos

Dependencies:assertthat bit bit64 cli clipr cpp11 crayon curl dplyr fs generics glue here hms jsonlite lifecycle magrittr pillar pkgconfig prettyunits progress purrr R6 readr rlang rprojroot snakecase stringi stringr tibble tidyr tidyselect tzdb utf8 vctrs vroom withr

Extending the Wildlife Disease Data Standard

Rendered fromextending_wdds.Rmdusingknitr::rmarkdownon Jun 03 2026.

Last update: 2025-09-29
Started: 2025-09-29

Getting Started

Rendered fromwddsWizard.Rmdusingknitr::rmarkdownon Jun 03 2026.

Last update: 2025-10-20
Started: 2025-03-12

Project Metadata

Rendered fromproject_metadata.Rmdusingknitr::rmarkdownon Jun 03 2026.

Last update: 2025-09-23
Started: 2025-02-06

Schema Overview

Rendered fromschema_overview.Rmdusingknitr::rmarkdownon Jun 03 2026.

Last update: 2025-10-20
Started: 2025-03-12

WDDS to Pharos

Rendered fromwdds_to_pharos.Rmdusingknitr::rmarkdownon Jun 03 2026.

Last update: 2025-10-20
Started: 2025-09-23

WDDS to Zenodo

Rendered fromwdds_to_zenodo.Rmdusingknitr::rmarkdownon Jun 03 2026.

Last update: 2025-09-23
Started: 2025-09-23

Wildlife Disease Data

Rendered fromdisease_data.Rmdusingknitr::rmarkdownon Jun 03 2026.

Last update: 2025-07-17
Started: 2025-02-06

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Batch download deposit versions	batch_download_deposit_versions
Becker et al. dataset	becker_disease_data
Becker et al. project metadata	becker_project_metadata
Clean Field Names	clean_field_names
Create Docs Section for a schema object	create_object_docs
Create Documentation for a schema	create_schema_docs
Datacite Data Stadnard	datacite_schema
Required fields in the disease data object	disease_data_required_fields
Wildlife Disease Data Standard - data	disease_data_schema
Download deposit version	download_deposit_version
Rate limited download of OA items	download_oa_item
Expand tidy dataframes to project metadata template format	expand_tidy_dfs
Extract Project Metadata from DOI	extract_metadata_from_doi
Extract Metadata from Open Alex record	extract_metadata_oa
Generate minimal project metadata template	generate_metadata_csv
generate_repeat_dfs	generate_repeat_dfs
Get entity	get_entity
Get schema references	get_ref
Get the required fields	get_required_fields
Increase documentation depth	increase_docs_depth
List Versions of a deposit on Zenodo	list_deposit_versions
File paths for wdds templates	list_wdds_templates
A convenience function for making non-repeating items	make_simple_df
An example of minimal disease data	minimal_disease_data
An example of minimal project metadata	minimal_project_metadata
Convert NA's to blanks	na_to_blank
Paste Reduce	paste_reduce
Paste Reduce unordered list item	paste_reduce_ul
prep affiliation	prep_affiliation
Prep array	prep_array
Prepare an array of objects	prep_array_objects
Prepare atomic	prep_atomic
Prepare creators	prep_creators
Prepare Data	prep_data
Prepare descriptions	prep_descriptions
Prepare data for json	prep_for_json
Prepare metadata created from the metadata template for conversion to JSON	prep_from_metadata_template
Prepare funding references	prep_fundingReferences
Prep identifier	prep_identifier
Prep language	prep_language
Prep methodology for conversion to json	prep_methodology
Prepare methods	prep_methods
Prepare Name identifiers	prep_nameIdentifiers
Prepare an object	prep_object
Prepare publication year items	prep_publicationYear
Prepare related identifiers	prep_relatedIdentifiers
Prepare rights	prep_rights
Prepare subjects	prep_subjects
Prepare Titles	prep_titles
Required fields in the project metadata object	project_metadata_required_fields
Wildlife Disease Data Standard - project_metadata	project_metadata_schema
Sanitize version ids	sanitize_version
Schema Object	schema_obj
Wildlife Disease Data Standard - schema properties	schema_properties
Wildlife Disease Data Standard required fields	schema_required_fields
Wildlife Disease Data Standard - schema terms	schema_terms
Set the wdds version for the package	set_wdds_version
Data frame of SPDX licenses	spdx_licenses
translate to dcmi	translate_to_dcmi
Use a wildlife disease data standard template	use_wdds_template
Provides Access to Versioned Data Template Files	wdds_data_templates
Provides Access to Versioned Example Data Files	wdds_example_data
Provides Access to Versioned Schema Files	wdds_json
Wildlife Disease Data Standard	wdds_schema
WDDS to the Dublin Core Metadata Initiative	wdds_to_dcmi
WDDS to DCMI metadata mapping	wdds_to_dcmi_map
Convert WDDS disease data to PHAROS data	wdds_to_pharos
WDDS to PHAROS metadata mapping	wdds_to_pharos_map