bdc: Biodiversity Data Cleaning

It brings together several aspects of biodiversity data-cleaning in one place. 'bdc' is organized in thematic modules related to different biodiversity dimensions, including 1) Merge datasets: standardization and integration of different datasets; 2) Pre-filter: flagging and removal of invalid or non-interpretable information, followed by data amendments; 3) Taxonomy: cleaning, parsing, and harmonization of scientific names from several taxonomic groups against taxonomic databases locally stored through the application of exact and partial matching algorithms; 4) Space: flagging of erroneous, suspect, and low-precision geographic coordinates; and 5) Time: flagging and, whenever possible, correction of inconsistent collection date. In addition, it contains features to visualize, document, and report data quality – which is essential for making data quality assessment transparent and reproducible. The reference for the methodology is Bruno et al. (2022) <doi:10.1111/2041-210X.13868>.

Version: 1.1.2
Imports: CoordinateCleaner, dplyr, DT, foreach, fs, ggplot2, here, magrittr, purrr, qs, readr, rgnparser, rnaturalearth, sf (≥ 1.0.5), stringdist, stringi, stringr, taxadb (≥ 0.1.3), tibble, tidyselect
Suggests: contentid (≥ 0.0.15), countrycode, covr, cowplot, DBI, doParallel, duckdb (≥ 0.3.2), knitr (≥ 1.31), maps, markdown, rangeBuilder, rappdirs, raster, remotes, rlang (≥ 1.0.1), rmarkdown, rnaturalearthdata, rvest, sp, testthat (≥ 3.0.0), xml2
Published: 2022-08-18
Author: Bruno Ribeiro ORCID iD [aut, cre], Santiago Velazco ORCID iD [aut], Karlo Guidoni-Martins ORCID iD [aut], Geiziane Tessarolo ORCID iD [aut], Lucas Jardim ORCID iD [aut], Steven Bachman ORCID iD [ctb], Rafael Loyola ORCID iD [ctb]
Maintainer: Bruno Ribeiro <ribeiro.brr at gmail.com>
BugReports: https://github.com/brunobrr/bdc/issues
License: GPL (≥ 3)
URL: https://brunobrr.github.io/bdc/ (website) https://github.com/brunobrr/bdc
NeedsCompilation: no
Language: en-gb
Materials: README NEWS
CRAN checks: bdc results

Documentation:

Reference manual: bdc.pdf
Vignettes: Standardization and integration of different datasets
Pre-filter
Space
Taxonomy
Time

Downloads:

Package source: bdc_1.1.2.tar.gz
Windows binaries: r-devel: bdc_1.1.2.zip, r-release: bdc_1.1.1.zip, r-oldrel: bdc_1.1.1.zip
macOS binaries: r-release (arm64): bdc_1.1.2.tgz, r-oldrel (arm64): bdc_1.1.2.tgz, r-release (x86_64): bdc_1.1.1.tgz, r-oldrel (x86_64): bdc_1.1.1.tgz
Old sources: bdc archive

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