Package: ecodist 2.1.3

Sarah Goslee

ecodist: Dissimilarity-Based Functions for Ecological Analysis

Dissimilarity-based analysis functions including ordination and Mantel test functions, intended for use with spatial and community ecological data. The original package description is in Goslee and Urban (2007) <doi:10.18637/jss.v022.i07>, with further statistical detail in Goslee (2010) <doi:10.1007/s11258-009-9641-0>.

Authors:Sarah Goslee [aut, cre], Dean Urban [aut]

ecodist_2.1.3.tar.gz
ecodist_2.1.3.zip(r-4.7)ecodist_2.1.3.zip(r-4.6)ecodist_2.1.3.zip(r-4.5)
ecodist_2.1.3.tgz(r-4.6-x86_64)ecodist_2.1.3.tgz(r-4.6-arm64)ecodist_2.1.3.tgz(r-4.5-x86_64)ecodist_2.1.3.tgz(r-4.5-arm64)
ecodist_2.1.3.tar.gz(r-4.7-arm64)ecodist_2.1.3.tar.gz(r-4.7-x86_64)ecodist_2.1.3.tar.gz(r-4.6-arm64)ecodist_2.1.3.tar.gz(r-4.6-x86_64)
ecodist_2.1.3.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
ecodist/json (API)

# Install 'ecodist' in R:

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

Bug tracker:https://github.com/phiala/ecodist/issues

Uses libs:

openblas– Optimized BLAS

Datasets:

bump - Nine-bump spatial pattern
bump.pmgram - Nine-bump spatial pattern
graze - Site information and grazed vegetation data.
iris.fit - Example of adding to an ordination
iris.nmds - Example for nmds
iris.vf - Example for vector fitting on ordination
iris.vfrot - Example for vector fitting on rotated ordination
z.no - Example for pmgram
z.z1 - Example for pmgram

On CRAN:

openblas

10.11 score 9 stars 13 packages 805 scripts 4.6k downloads 205 mentions 29 exports 11 dependencies

Last updated from:aeac585427. Checks:13 OK. Indexed: yes.

Target	Result	Time
linux-devel-arm64	OK	151
linux-devel-x86_64	OK	120
source / vignettes	OK	158
linux-release-arm64	OK	164
linux-release-x86_64	OK	123
macos-release-arm64	OK	128
macos-release-x86_64	OK	178
macos-oldrel-arm64	OK	204
macos-oldrel-x86_64	OK	229
windows-devel	OK	77
windows-release	OK	75
windows-oldrel	OK	94
wasm-release	OK	108

Exports:addord bcdist cor2m corgen crosstab distance fixdmat full lower mantel mgram mgroup min.nmds MRM nmds nmds.min pathdist pco plot.mgram plot.nmds plot.vf pmgram relrange residuals.mgram rotate2d vf xdistance xmantel xmgram

Dependencies:cli cpp11 glue igraph lattice lifecycle magrittr Matrix pkgconfig rlang vctrs

Dissimilarity Cheat Sheet

Rendered fromdissimilarity.Rmdusingknitr::rmarkdown

Last update: 2023-08-04
Started: 2017-07-07

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Dissimilarity-Based Functions for Ecological Analysis	ecodist-package ecodist
Fit new points to an existing NMDS configuration.	addord
Bray-Curtis distance	bcdist
Nine-bump spatial pattern	bump
Nine-bump spatial pattern	bump.pmgram
Two-matrix correlation table	cor2m
Generate correlated data	corgen
Data formatting	crosstab
Dimension of a distance object	dim.dist
Calculate dissimilarity/distance metrics	distance
Distance matrix conversion	fixdmat
Full symmetric matrix	full
Site information and grazed vegetation data.	graze
Example of adding to an ordination	iris.fit
Example for nmds	iris.nmds
Example for vector fitting on ordination	iris.vf
Example for vector fitting on rotated ordination	iris.vfrot
Lower-triangular matrix	lower
Mantel test	mantel
Mantel correlogram	mgram
Mantel test for groups	mgroup
Find minimum stress configuration	min.nmds nmds.min
Multiple Regression on distance Matrices	MRM
Non-metric multidimensional scaling	nmds
Graph extension of dissimilarities	pathdist
Principal coordinates analysis	pco
Plot a Mantel correlogram	plot.mgram
Plot information about NMDS ordination	plot.nmds
Plots fitted vectors onto an ordination diagram	plot.vf
Piecewise multivariate correlogram	pmgram
Relativize a compositional data matrix.	relrange
Residuals of a Mantel correlogram	residuals.mgram
Rotate a 2D ordination.	rotate2d
Vector fitting	vf
Cross-distance between two datasets.	xdistance
Cross-Mantel test	xmantel
Cross-Mantel correlogram	xmgram
Example for pmgram	z.no
Example for pmgram	z.z1