Package: ecolottery 2.0.0

ecolottery: Coalescent-Based Simulation of Ecological Communities

Coalescent-Based Simulation of Ecological Communities as proposed by Munoz et al. (2018) <doi:10.1111/2041-210X.12918>. The package includes a tool for estimating parameters of community assembly by using Approximate Bayesian Computation.

Authors:François Munoz [aut, cre], Matthias Grenié [aut], Pierre Denelle [aut], Elizabeth Barthelemy [aut], Adrien Taudière [ctb], Fabien Laroche [ctb], Caroline Tucker [ctb], Cyrille Violle [ctb]

ecolottery_2.0.0.tar.gz
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manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
ecolottery/json (API)

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

Bug tracker:https://github.com/frmunoz/ecolottery/issues

On CRAN:

Conda:

6.32 score 15 stars 1 packages 23 scripts 672 downloads 1 mentions 18 exports 88 dependencies

Last updated from:c60cd8c913. Checks:7 WARNING, 2 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-x86_64WARNING331
source / vignettesOK307
linux-release-x86_64WARNING193
macos-release-arm64WARNING178
macos-oldrel-arm64WARNING213
windows-develWARNING152
windows-releaseWARNING130
windows-oldrelWARNING134
wasm-releaseOK134

Exports:abundcoalesccoalesc_abccoalesc_abc_stdcoalesc_easyABCdo.simul.coalescforwardgauss_limitgenerate_priorget_number_of_gensinitial_checkspickpick.immigratepick.mutateplot_commprdch4coalescsumstatstcor

Dependencies:abcabc.dataabindade4apecliclusterclusterGenerationcodacodetoolscolorspacecombinatcpp11data.tableDEoptimdeSolvedigestdoParallelEasyABCexpmfarverfastmatchFDforeachgeigergenericsgeometryggplot2gluegtablehillRigraphisobanditeratorslabelinglatticelazyevallhslifecyclelinproglocfitlpSolvemagicmagrittrmapsMASSMatrixMatrixModelsmgcvmnormtmomentsmvtnormncbitnlmennetnumDerivoptimParallelpbapplypermutephangornphytoolspillarpixmappkgconfigplsplyrquadprogquantregR6RColorBrewerRcppRcppArmadilloRcppProgressrlangS7scalesscatterplot3dspSparseMsubplexsurvivaltensorAtibbleutf8vctrsveganviridisLitewithr

Appendix 1: basic functions and examples
Neutral dynamics in species pool and communities | User-defined species pool | Trait distribution in communities | Environmental filtering | Filtering of multiple traits | Investigating phylogenetic structure in communities | Forward-in-time simulation | References
Rendered fromcoalesc_vignette.Rmdusingknitr::rmarkdown

Last update: 2020-04-02
Started: 2016-12-07

coalesc_abc function with a site-species matrix: example with Barro-Colorado dataset.
Appendix 3: ABC estimation of neutral parameters in Barro Colorado Island rainforest, using coalescent-based simulation
Rendered fromBarro_Colorado.Rmdusingknitr::rmarkdown

Last update: 2019-04-03
Started: 2017-04-21