match_datasets: Data harmonizing for offline data based on Darwin Core terms...

In specleanr: Detecting Environmental Outliers in Data Analysis Pipelines

Data harmonizing for offline data based on Darwin Core terms .

Description

Data harmonizing for offline data based on Darwin Core terms .

Usage

match_datasets(
  datasets,
  country = NULL,
  lats = NULL,
  lons = NULL,
  species = NULL,
  date = NULL,
  verbose = FALSE
)

Arguments

datasets	List of offline or online data to be merge. Each offline data set should be given a specific name for identification in the match data set.
country	Indicate the country column names as they appear in the data sets to be merged.
lats	Match the column names for latitude for each data set to be matched. The default latitude name is decimalLatitude. So, indicate the latitude name as it is referenced in all data sets to be matched.
lons	Match the column names for latitude for each data set to be match. The default longitude name is decimalLongitude. So, indicate the longitude name as it is referenced in all data sets to be match.
species	Indicate the species columns as they appear in the data sets to be matched. The default is species, so if the data set doesn't have species as the column name for scientific species names names, indicate the column name here.
date	Indicate the date column names as they appear in the data sets to be matched.
verbose	Messages during data matching. Default FALSE

Details

If a data set being matched has standard columns, namely decimalLatitude, decimalLatutide, and species, then they are not indicated while matching. Otherwise all column names with varying names for the 5 parameters should be indicated.

Value

Harmonized data set with standardized column names foe species names, latitude, longitude, country and dates.

References

Wieczorek J, Bloom D, Guralnick R, Blum S, Döring M, Giovanni R, et al. (2012) Darwin Core: An Evolving Community-Developed Biodiversity Data Standard. PLoS ONE 7(1): e29715. https://doi.org/10.1371/journal.pone.0029715.

Examples

data(jdsdata)

data(efidata)

matchdfs <- match_datasets(datasets = list(jds = jdsdata, efi = efidata),
                           lats = 'lat',
                           lons = 'lon',
                           species = c('speciesname','scientificName'),
                           country=c('JDS4_site_ID'),
                           date=c('Date', 'sampling_date'))

specleanr documentation built on Nov. 26, 2025, 1:07 a.m.