Darwinizer: Darwin Core (DwC) Field Names Standardization

The 'shiny' application 'bdDwC' makes biodiversity data field names Darwin Core compatible.


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Darwinazing biodiversity data in R (this package is in preparation stage and soon will be submitted to CRAN).

"Darwin Core is a standard maintained by the Darwin Core maintenance group. It includes a glossary of terms intended to facilitate the sharing of information about biological diversity by providing identifiers, labels, and definitions." Darwin Core

bdDwC is R package (soon to be submitted to CRAN) that user can Darwinize given data using shiny application interface. This package is part of bd-R and soon will be implemented into two other packages bdchecks and bdclean

This package lets user to:

  • Upload users dataset.
  • Upload users dictionary.
  • Run automatic Darwinizer.
  • Perform manual renaming.

All these actions are done within reactive shiny environment.


Install bdDwC with:

devtools::install_github("bd-R/bdDwC")

Run bdDwC shiny app with:

library(bdDwC)
runDwC()

To use bdDwC from the command line:

Load bdDwC package

library(bdDwC)

bdDwC contains Indian Reptile dataset bdDwC:::dataReptiles.
Darwinize data with darwinizeNames (replace bdDwC:::dataReptiles with wanted dataset):

result <- darwinizeNames(dataUser = bdDwC:::dataReptiles,
                        dataDWC   = bdDwC:::dataDarwinCloud$data)

Rename your data using bdDwC with renameUserData:

# Replace `bdDwC:::dataReptiles` with wanted dataset
renameUserData(bdDwC:::dataReptiles, result)

To get newest version of Darwin Cloud Data run:

downloadCloudData()

which will download data from the remote repository and extract field and standard names.

News

Reference manual

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install.packages("bdDwC")

0.1.15 by Povilas Gibas, 7 months ago


Browse source code at https://github.com/cran/bdDwC


Authors: Povilas Gibas [aut, cre] , Tomer Gueta [aut] , Vijay Barve [aut] , Thiloshon Nagarajah [aut] , Yohay Carmel [aut]


Documentation:   PDF Manual  


GPL-3 license


Imports shiny, shinyBS, shinydashboard, shinyjs, shinyFiles

Suggests testthat, covr


Imported by bdchecks.


See at CRAN