Package: rasterdiv 0.3.6

rasterdiv: Diversity Indices for Numerical Matrices

Provides methods to calculate diversity indices on numerical matrices based on information theory, as described in Rocchini, Marcantonio and Ricotta (2017) <doi:10.1016/j.ecolind.2016.07.039>, and Rocchini et al. (2021) <doi:10.1101/2021.01.23.427872>.

Authors:Matteo Marcantonio [aut, cre], Martina Iannacito [aut, ctb], Elisa Marchetto [ctb], Elisa Thouverai [aut, ctb], Michele Torresani [aut, ctb], Daniele Da Re [aut], Clara Tattoni [aut], Giovanni Bacaro [aut], Saverio Vicario [aut, ctb], Carlo Ricotta [aut], Duccio Rocchini [aut, ctb]

rasterdiv_0.3.6.tar.gz
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manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
rasterdiv/json (API)

# Install 'rasterdiv' in R:
install.packages('rasterdiv', repos = c('https://mattmar.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/mattmar/rasterdiv/issues

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

On CRAN:

Conda:

7.71 score 22 stars 1 packages 103 scripts 642 downloads 1 mentions 25 exports 41 dependencies

Last updated from:b868c4cf66. Checks:7 WARNING, 2 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-x86_64WARNING171
source / vignettesOK247
linux-release-x86_64WARNING160
macos-release-arm64WARNING166
macos-oldrel-arm64WARNING157
windows-develWARNING126
windows-releaseWARNING102
windows-oldrelWARNING622
wasm-releaseOK128

Exports:.CRE_.CumRes.Deltas.Prob.ReorderBergerParkerBergerParkerPBergerParkerSCREheliPlotheliPrepHillload_copNDVIopenClusterpaRaoPielouRaoRaoAUCRenyiRenyiPRenyiSShannonShannonPShannonSvalidateInputs

Dependencies:base64encclicodetoolscpp11crayondoParallelfarverforeachggforceggplot2gluegridExtragtablehmsisobanditeratorsjsonlitelabelinglifecyclemagrittrMASSpkgconfigpolyclipprettyunitsprogressproxyR6RColorBrewerRcpprlangS7scalessystemfontsterratidyselecttwdtwtweenrvctrsviridisviridisLitewithr

Derive the Accumulation Rao's Index
Overview | Resample NDVI to a coarser resolution | Simulating NDVI Value Reduction (e.g., Due to Extensive Forest Fires) | Compute the accumulation Rao's index | Visualise the difference | Demonstrate accRao calculation | Visualising Accumulation Function Differences
Rendered fromrasterdiv_04_Accumulation_Rao.Rmdusingknitr::rmarkdown

Last update: 2025-02-25
Started: 2023-11-10

Area-based Rao's index.
Overview | Compute Area based Rao's Index | Compute multidimension area-based Rao's Index | Additional example subsetting on a continent and then using a grid vector to derive Rao's in each cell
Rendered fromrasterdiv_02_Area_based_Rao.Rmdusingknitr::rmarkdown

Last update: 2024-10-01
Started: 2023-11-10

Multidimension Rao's Index.
Overview | Creating Autocorrelated Spatial Patterns | Computing Multidimensional Rao's Index | Visualisation of the result | Computing Multidimensional Rao's Index for Time Series | Creating Autocorrelated Spatio-Temporal Patterns | Computing Multidimensional Rao’s Index with and without phenology
Rendered fromrasterdiv_03_Advanced_multidimension_Rao.Rmdusingknitr::rmarkdown

Last update: 2024-10-01
Started: 2023-11-10

Visualising rasterdiv indexes with Helical Plots
NDVI Time Series of a Deciduous Forest | Rao's Index Calculation | Data Preparation for Helical Plotting | Helical Plots Visualisation | Applying helical plots to COVID-19 data | Customising heliPlot
Rendered fromrasterdiv_05_Helical_Plots.Rmdusingknitr::rmarkdown

Last update: 2024-10-01
Started: 2023-11-10

Indices of diversity from NDVI.
Overview | Compute all indexes in rasterdiv on copNDVI | Visualise output SpatRasters (the shape of continents is deformed by the NAs in the 9x9 moving windows)
Rendered fromrasterdiv_01_Basics.Rmdusingknitr::rmarkdown

Last update: 2023-12-05
Started: 2023-11-10

Readme and manuals

Help Manual

Help pageTopics
Cumulative Residual Entropy.CRE_
Calculate Cumulative Residual Probability.CumRes
Calculate Differences Among Values.Deltas
Calculate Point Probability.Prob
Additional supporting functions like `.Reorder`, `.Cumsum`, `.Rev`.Reorder
Berger-Parker's diversity indexBergerParker
Calculate Berger-Parker Index on a MatrixBergerParkerP
Sequential Berger-Parker's diversity indexBergerParkerS
Copernicus Long Term (1999-2017) NDVI Overview (5km)copNDVI
Cumulative Residual Entropy (CRE) FunctionCRE
Create a Helical Plot for Time Series DataheliPlot
Prepare Data for Helical PlottingheliPrep
Hill's index of diversity - Hill numbers (D)Hill
Load Copernicus NDVI dataload_copNDVI
Area-Based Sequential Parametric Rao's index of quadratic entropy (Q)mpaRaoAreaS
Multidimensional sequential Parametric Rao's index of quadratic entropy (Q)mpaRaoS
Simulated NDVI datasetndviForestTS
Open a Parallel ClusteropenCluster
Parametric Rao's index of quadratic entropy (Q)paRao
Parallelized Parametric Rao's index of quadratic entropy (Q)paRaoP
Sequential Parametric Rao's index of quadratic entropy (Q)paRaoS
Pielou's Evenness IndexPielou
Parallelised Pielou's diversity indexPielouP
Sequential Pielou's diversity indexPielouS
Process Raster Resultsprocess_raster_result
Rao's indexRao
Accumulation function for parametric Rao's index of quadratic entropy (Q)RaoAUC
Renyi Diversity Index CalculationRenyi
Parallel Computation of Renyi's Diversity IndexRenyiP
Sequential Renyi's diversity indexRenyiS
Shannon's Evenness IndexShannon
Calculate Shannon-Wiener Index on a MatrixShannonP
Calculate Shannon-Wiener Index on a MatrixShannonS
Validate Input Parameters for Diversity Index CalculationvalidateInputs