Package: SADISA 1.2

SADISA: Species Abundance Distributions with Independent-Species Assumption

Computes the probability of a set of species abundances of a single or multiple samples of individuals with one or more guilds under a mainland-island model. One must specify the mainland (metacommunity) model and the island (local) community model. It assumes that species fluctuate independently. The package also contains functions to simulate under this model. See Haegeman, B. & R.S. Etienne (2017). A general sampling formula for community structure data. Methods in Ecology & Evolution 8: 1506-1519 <doi:10.1111/2041-210X.12807>.

Authors:Rampal S. Etienne & Bart Haegeman

SADISA_1.2.tar.gz
SADISA_1.2.zip(r-4.7)SADISA_1.2.zip(r-4.6)SADISA_1.2.zip(r-4.5)
SADISA_1.2.tgz(r-4.6-any)SADISA_1.2.tgz(r-4.5-any)
SADISA_1.2.tar.gz(r-4.7-any)SADISA_1.2.tar.gz(r-4.6-any)
SADISA_1.2.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
SADISA/json (API)

# Install 'SADISA' in R:

install.packages('SADISA', repos = c('https://rsetienne.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/rsetienne/sadisa/issues

Datasets:

datasets - Data sets of various tropical forest communities
fitresults - Maximum likelihood estimates and corresponding likelihood values for various fits to various tropical forest communities

On CRAN:

3.00 score 6 scripts 150 downloads 6 exports 43 dependencies

Last updated from:f220249e82. Checks:9 OK. Indexed: yes.

Target	Result	Time
linux-devel-x86_64	OK	146
source / vignettes	OK	194
linux-release-x86_64	OK	151
macos-release-arm64	OK	125
macos-oldrel-arm64	OK	142
windows-devel	OK	120
windows-release	OK	101
windows-oldrel	OK	101
wasm-release	OK	127

Exports:convert_fa2sf integral_peak SADISA_loglik SADISA_ML SADISA_sim SADISA_test

Dependencies:ape BH cli clusterGeneration coda codetools combinat cpp11 DDD DEoptim deSolve digest doParallel expm fastmatch foreach generics glue igraph iterators lattice lifecycle magrittr maps MASS Matrix mnormt nlme numDeriv optimParallel phangorn phytools pkgconfig pracma pso quadprog Rcpp RcppEigen rlang scatterplot3d SparseM subplex vctrs

Using SADISA

SADISA introduction | SADISA usage

Rendered fromdemo.Rmdusingknitr::knitr

Last update: 2019-03-14
Started: 2018-10-12

Help page	Topics
Converts different formats to represent multiple sample data	convert_fa2sf
Data sets of various tropical forest communities	datasets
Maximum likelihood estimates and corresponding likelihood values for various fits to various tropical forest communities	fitresults
Computes integral of a very peaked function	integral_peak
Computes loglikelihood for requested model	SADISA_loglik
Performs maximum likelihood parameter estimation for requested model	SADISA_ML
Simulates species abundance data	SADISA_sim
Tests SADISA for data sets included in the paper by Haegeman & Etienne	SADISA_test

Package: SADISA 1.2

SADISA: Species Abundance Distributions with Independent-Species Assumption

Citation

Development and contributors

Readme and manuals

Help Manual

Usage by other packages (reverse dependencies)