Package: metaRange 1.1.4

Stefan Fallert

metaRange: Framework to Build Mechanistic and Metabolic Constrained Species Distribution Models

Build spatially and temporally explicit process-based species distribution models, that can include an arbitrary number of environmental factors, species and processes including metabolic constraints and species interactions. The focus of the package is simulating populations of one or multiple species in a grid-based landscape and studying the meta-population dynamics and emergent patterns that arise from the interaction of species under complex environmental conditions. It provides functions for common ecological processes such as negative exponential, kernel-based dispersal (see Nathan et al. (2012) <doi:10.1093/acprof:oso/9780199608898.003.0015>), calculation of the environmental suitability based on cardinal values ( Yin et al. (1995) <doi:10.1016/0168-1923(95)02236-Q>, simplified by Yan and Hunt (1999) <doi:10.1006/anbo.1999.0955> see eq: 4), reproduction in form of an Ricker model (see Ricker (1954) <doi:10.1139/f54-039> and Cabral and Schurr (2010) <doi:10.1111/j.1466-8238.2009.00492.x>), as well as metabolic scaling based on the metabolic theory of ecology (see Brown et al. (2004) <doi:10.1890/03-9000> and Brown, Sibly and Kodric-Brown (2012) <doi:10.1002/9781119968535.ch>).

Authors:Stefan Fallert [aut, cre, cph], Lea Li [aut, cph], Juliano Sarmento Cabral [aut, cph, ths], Tyler Morgan-Wall [ctb, cph], Bavarian Ministry of Science and Arts [fnd], Deutsche Bundesstiftung Umwelt [fnd]

metaRange_1.1.4.tar.gz
metaRange_1.1.4.tar.gz(r-4.5-noble)metaRange_1.1.4.tar.gz(r-4.4-noble)
metaRange_1.1.4.tgz(r-4.4-emscripten)metaRange_1.1.4.tgz(r-4.3-emscripten)
metaRange.pdf |metaRange.html
metaRange/json (API)
NEWS

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

Peer review:

Bug tracker:https://github.com/metarange/metarange/issues

Uses libs:
  • openblas– Optimized BLAS
  • c++– GNU Standard C++ Library v3

4.17 score 11 scripts 158 downloads 16 exports 6 dependencies

Last updated 10 months agofrom:b40940b651. Checks:OK: 2. Indexed: no.

TargetResultDate
Doc / VignettesOKNov 06 2024
R-4.5-linux-x86_64OKNov 06 2024

Exports:calculate_dispersal_kernelcalculate_normalization_constantcalculate_suitabilitycreate_simulationdispersalmetabolic_scalingmetaRangeEnvironmentmetaRangePriorityQueuemetaRangeProcessmetaRangeSimulationmetaRangeSpeciesnegative_exponential_functionricker_allee_reproduction_modelricker_reproduction_modelsave_speciesset_verbosity

Dependencies:backportscheckmateR6RcppRcppArmadilloterra

01: Introduction to metaRange

Rendered fromA01_intro.Rmdusingknitr::rmarkdownon Nov 06 2024.

Last update: 2024-02-10
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02: Multiple species

Rendered fromA02_multiple_species.Rmdusingknitr::rmarkdownon Nov 06 2024.

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03: Niche suitability

Rendered fromA03_niche_suitability.Rmdusingknitr::rmarkdownon Nov 06 2024.

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04: Dispersal

Rendered fromA04_dispersal.Rmdusingknitr::rmarkdownon Nov 06 2024.

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05: Species interactions

Rendered fromA05_species_interactions.Rmdusingknitr::rmarkdownon Nov 06 2024.

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06: Metabolic scaling

Rendered fromA06_metabolic_scaling.Rmdusingknitr::rmarkdownon Nov 06 2024.

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07: Age structured populations

Rendered fromA07_age_structured_populations.Rmdusingknitr::rmarkdownon Nov 06 2024.

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08: Advanced options

Rendered fromA08_advanced_options.Rmdusingknitr::rmarkdownon Nov 06 2024.

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09: Troubleshooting / caveats

Rendered fromA09_troubleshooting_and_caveats.Rmdusingknitr::rmarkdownon Nov 06 2024.

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Readme and manuals

Help Manual

Help pageTopics
Calculate 2D dispersal kernel.calculate_dispersal_kernel
Normalization constant calculationcalculate_normalization_constant
Calculate (estimate) environmental suitabilitycalculate_suitability
Create a simulationcreate_simulation
Dispersal processdispersal
Metabolic scalingmetabolic_scaling
metaRangeEnvironment objectmetaRangeEnvironment
Process priority queuemetaRangePriorityQueue
metaRangeProcess objectmetaRangeProcess
metaRangeSimulation objectmetaRangeSimulation
metaRangeSpecies objectmetaRangeSpecies
Negative Exponential kernelnegative_exponential_function
Plotting functionplot.metaRangeEnvironment
Plotting functionplot.metaRangeSimulation
Plotting functionplot.metaRangeSpecies
Print traits or globalsprint.metaRangeVariableStorage
Ricker reproduction model with Allee effectsricker_allee_reproduction_model
Ricker reproduction modelricker_reproduction_model
Save functionsave_species
Set verbosity of metaRange simulationset_verbosity
Summary for metaRange simulationsummary.metaRangeSimulation
Summary for metaRange speciessummary.metaRangeSpecies