Package: nichetools 0.3.3

nichetools: Complementary Package to 'nicheROVER' and 'SIBER'

Provides functions complementary to packages 'nicheROVER' and 'SIBER' allowing the user to extract Bayesian estimates from data objects created by the packages 'nicheROVER' and 'SIBER'. Please see the following publications for detailed methods on 'nicheROVER' and 'SIBER' Hansen et al. (2015) <doi:10.1890/14-0235.1>, Jackson et al. (2011) <do i:10.1111/j.1365-2656.2011.01806.x>, and Layman et al. (2007) <doi:10.1890/0012-9658(2007)88[42:CSIRPF]2.0.CO;2>, respectfully.

Authors:Benjamin L. Hlina [aut, cre]

nichetools_0.3.3.tar.gz
nichetools_0.3.3.zip(r-4.7)nichetools_0.3.3.zip(r-4.6)nichetools_0.3.3.zip(r-4.5)
nichetools_0.3.3.tgz(r-4.6-any)nichetools_0.3.3.tgz(r-4.5-any)
nichetools_0.3.3.tar.gz(r-4.7-any)nichetools_0.3.3.tar.gz(r-4.6-any)
nichetools_0.3.3.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
nichetools/json (API)
NEWS

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

Bug tracker:https://github.com/benjaminhlina/nichetools/issues

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

Uses libs:
  • jags– Just Another Gibbs Sampler for Bayesian MCMC - binary JAGS is Just Another Gibbs Sampler. It is a program for analysis of Bayesian hierarchical models using Markov Chain Monte Carlo (MCMC) simulation not wholly unlike BUGS. JAGS was written with three aims in mind: * To have an engine for the BUGS language that runs on Unix * To be extensible, allowing users to write their own functions, distributions and samplers. * To be a plaftorm for experimentation with ideas in Bayesian modelling This package contains the 'jags' binary as well as the associated shared library modules loaded by the binary.
  • c++– GNU Standard C++ Library v3
Datasets:
  • mu_est_long - A 'data.frame' containing posterior estimates of mu
  • niw_fish_post - A 'list' of the posterior estimates of mu and Sigma from '{nicheROVER}'
  • over_stat - A 'data.frame' containing the estimates of percentage of overlap among groups
  • post_sam_siber - A 'list' of the posterior estimates of mu and Sigma from '{SIBER}'
  • sigma_est_wide - A 'data.frame' containing posterior estimates of Sigma

On CRAN:

Conda:

jagscpp

5.41 score 2 stars 16 scripts 520 downloads 9 exports 52 dependencies

Last updated from:ad51e49f64. Checks:9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-x86_64OK227
source / vignettesOK268
linux-release-x86_64OK235
macos-release-arm64OK168
macos-oldrel-arm64OK166
windows-develOK168
windows-releaseOK199
windows-oldrelOK191
wasm-releaseOK135

Exports:create_comparisonsextract_group_metricsextract_laymanextract_muextract_niche_sizeextract_overlapextract_sigmaextract_similaritiesniche_ellipse

Dependencies:ashclicodacpp11dplyrellipsefarverFNNgenericsggplot2gluegtablehdrcdeisobandkernlabKernSmoothkslabelinglatticelifecyclelocfitmagrittrMatrixmclustmgcvmnormtmulticoolmvtnormnicheROVERnlmepillarpkgconfigpracmapurrrR6RColorBrewerRcpprjagsrlangS7scalesSIBERspatstat.utilsstringistringrtibbletidyrtidyselectutf8vctrsviridisLitewithr

Using {nichetools} with nicheROVER

Benjamin L. Hlina

Rendered fromusing-nichetools-with-the-package-nicheROVER.Rmdusingknitr::rmarkdownon May 13 2026.

Last update: 2024-09-30
Started: 2024-05-31

Using {nichetools} with SIBER

Benjamin L. Hlina

Rendered fromusing-nichetools-with-the-package-SIBER.Rmdusingknitr::rmarkdownon May 13 2026.

Last update: 2024-09-30
Started: 2024-07-17