Package: dubicube 0.12.4

Ward Langeraert

dubicube: Calculation and Interpretation of Data Cube Indicator Uncertainty

This R package provides functions to explore data cubes using simple measures and cross-validation techniques. It can also be used for uncertainty calculation using the bootstrap resampling method, and functionality is provided for efficient interpretation and visualisation of uncertainty related to indicators based on occurrence cubes.

Authors:Ward Langeraert [aut, cre], Toon Van Daele [aut], Research Institute for Nature and Forest [cph, pbl], European Union [fnd]

dubicube_0.12.4.tar.gz
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dubicube_0.12.4.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
dubicube/json (API)

# Install 'dubicube' in R:

install.packages('dubicube', repos = c('https://b-cubed-eu.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/b-cubed-eu/dubicube/issues

Pkgdown/docs site:https://b-cubed-eu.github.io

On CRAN:

biodiversity-indicators data-cubes uncertainty-quantification uncertainty-visualisation

4.44 score 4 stars 2 packages 23 scripts 26 exports 70 dependencies

Last updated from:794524e57a. Checks:9 OK. Indexed: yes.

The latest version of this package failed to build. Look at thebuild logs for more information.

Target	Result	Time
linux-devel-x86_64	OK	234
source / vignettes	OK	186
linux-release-x86_64	OK	250
macos-release-arm64	OK	133
macos-oldrel-arm64	OK	189
windows-devel	OK	202
windows-release	OK	192
windows-oldrel	OK	181
wasm-release	OK	164

Exports:add_effect_classification basic_ci basic_cube_rules bca_ci boot_list_to_dataframe bootstrap_cube bootstrap_cube_raw calculate_acceleration calculate_boot_ci_from_boot calculate_bootstrap_ci cross_validate_cube derive_bootstrap_method diagnose_cube filter_cube norm_ci perc_ci process_boot_input resolve_bootstrap_method rule_obs_min_records rule_obs_min_total rule_spatial_max_uncertainty rule_spatial_min_cells rule_spatial_miss_uncertainty rule_taxon_min_taxa rule_temporal_min_years rule_temporal_missing_years

Dependencies:askpass assertthat backports base64enc boot broom bslib cachem cli cpp11 crosstalk curl data.table digest dplyr effectclass evaluate farver fastmap fontawesome fs generics ggplot2 glue gtable highr htmltools htmlwidgets httr isoband jquerylib jsonlite knitr labeling later lazyeval lifecycle magrittr memoise mime modelr openssl otel pillar pkgconfig plotly promises purrr R6 rappdirs RColorBrewer Rcpp rlang rmarkdown S7 sass scales stringi stringr sys tibble tidyr tidyselect tinytex utf8 vctrs viridisLite withr xfun yaml

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Add effect classifications to a dataframe by comparing the confidence intervals with a reference and thresholds	add_effect_classification
Calculate basic bootstrap confidence interval	basic_ci
Basic diagnostic rules for data cubes	basic_cube_rules
Calculate Bias-Corrected and Accelerated (BCa) bootstrap confidence interval	bca_ci
Convert a list of 'boot' objects to a tidy dataframe	boot_list_to_dataframe
Perform bootstrapping over a data cube for a calculated statistic	bootstrap_cube
Perform bootstrapping over a dataframe for a calculated statistic	bootstrap_cube_raw
Calculate acceleration for a statistic in a dataframe	calculate_acceleration
Calculate confidence intervals from a 'boot' object	calculate_boot_ci_from_boot
Calculate confidence intervals from bootstrap results	calculate_bootstrap_ci
Leave-one-out cross-validation for data cubes	cross_validate_cube
Diagnose data quality of a processed data cube	diagnose_cube
Filter a processed data cube using diagnostic rules	filter_cube
Calculate normal bootstrap confidence interval	norm_ci
Calculate percentile bootstrap confidence interval	perc_ci
Plot cube diagnostics	plot.cube_diagnostics
Print cube diagnostics	print.cube_diagnostics
Resolve bootstrap method including use of the boot package	resolve_bootstrap_method
Minimum number of records diagnostic rule	rule_obs_min_records
Minimum total number of observations diagnostic rule	rule_obs_min_total
Maximal coordinate uncertainty diagnostic rule	rule_spatial_max_uncertainty
Spatial minimum grid cells diagnostic rule	rule_spatial_min_cells
Missing coordinate uncertainty diagnostic rule	rule_spatial_miss_uncertainty
Taxonomic minimum taxa diagnostic rule	rule_taxon_min_taxa
Temporal minimum years diagnostic rule	rule_temporal_min_years
Temporal gaps diagnostic rule	rule_temporal_missing_years
Summarise cube diagnostics	summary.cube_diagnostics