Package: natto 0.3

natto: An Extreme 'vegan' Package of Experimental Code

Random code that is too experimental or too weird to be included in the vegan package.

Authors:Jari Oksanen [cre, aut]

natto_0.3.tar.gz
natto_0.3.zip(r-4.5)natto_0.3.zip(r-4.4)natto_0.3.zip(r-4.3)
natto_0.3.tgz(r-4.4-any)natto_0.3.tgz(r-4.3-any)
natto_0.3.tar.gz(r-4.5-noble)natto_0.3.tar.gz(r-4.4-noble)
natto_0.3.tgz(r-4.4-emscripten)natto_0.3.tgz(r-4.3-emscripten)
natto.pdf |natto.html✨
natto/json (API)

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

Peer review:

Bug tracker:https://github.com/jarioksa/natto/issues

Datasets:
  • BCI.env2 - Habitat Types of Barro Colorado Island Forest Plots
  • BCI.taxon - Botanical Classification of Barro Colorado Island Species
  • pond - Relative Zooplankton Abundances in Ponds
  • spurn - Dune Scrub Vegetation in Spurn Point, Yorkshire

On CRAN:

4.51 score 8 stars 41 exports 8 dependencies

Last updated 3 months agofrom:7a5b04d0ed. Checks:OK: 1 NOTE: 6. Indexed: yes.

TargetResultDate
Doc / VignettesOKOct 26 2024
R-4.5-winNOTEOct 26 2024
R-4.5-linuxNOTEOct 26 2024
R-4.4-winNOTEOct 26 2024
R-4.4-macNOTEOct 26 2024
R-4.3-winNOTEOct 26 2024
R-4.3-macNOTEOct 26 2024

Exports:as.prcompbayesjaccardbjdbrdabjNMDSbjpolygonbjstarscanneddistclsetsclsupportdistconstraindistMeansdistraodiverclustdiverdisteigenvalsginkgogramgnlmodgradrescalehumpfitiapiapqinfoclustmrankdistpeelellipsepeelhullpolarordposvectordqraoraostandrdecoranarecommresassoc.ccarespthreshsdcaslopediffslopediff2sppscores<-spvectordsubdiagswanrandomtaxondist

Dependencies:clusterlatticeMASSMatrixmgcvnlmepermutevegan

beta and gamma diversity clustering

Rendered fromdiverclust.Rnwusingknitr::knitron Oct 26 2024.

Last update: 2017-04-27
Started: 2017-04-27

Rao standardization

Rendered fromraostand.Rnwusingknitr::knitron Oct 26 2024.

Last update: 2023-04-25
Started: 2023-04-25

Readme and manuals

Help Manual

Help pageTopics
Cast deldir Object to Distances Between Neighboursas.dist.deldir
Cast vegan::rda Result to base::prcompas.prcomp as.prcomp.rda
Community Dissimilarity as Expected or Sampled Beta Variatebayesjaccard
Habitat Types of Barro Colorado Island Forest PlotsBCI.env2
Botanical Classification of Barro Colorado Island SpeciesBCI.taxon
Multiple dbRDA from Beta Distributed Jaccard Dissimilaritybjdbrda boxplot.bjdbrda plot.bjdbrda scores.bjdbrda
Multiple NMDS Ordinations from Beta Distributed Jaccard DissimilaritybjNMDS plot.bjnmds
Shapes to Display Scatter of Points in Multiple Ordinationsbjpolygon bjstars
Canned Dissimilarities with their Vernacular Namescanneddist
Support of Branches of Hierarchical Clustering from Beta Jaccardclsets clsupport
Constrained and Residual Dissimilaritiesdistconstrain
Mean of DistancesdistMeans distMeans.default distMeans.formula
beta and gamma Diversity Clusteringdiverclust
beta and gamma Diversity Distancediverdist
Plot Dendrogram with Leaves as Fansginkgogram
Generalized Non-Linear Regression Analysisgnlmod predict.gnlmod summary.gnlmod
Rescale Ecological Gradient to Constant Community Heterogeneitygradrescale
No-interaction Model for Hump-backed Species Richness vs. Biomasshumpfit lines.humpfit plot.humpfit points.humpfit predict.humpfit profile.humpfit summary.humpfit
Number of Companion Species (IAP)iap iapq plot.iapq summary.iapq
Information Clusterings of Ecological Communitiesinfoclust
Mean Rank Shift Between Pairs of Sitesmrankdist
Convex Hull Enclosing a Given Proportion of Pointspeelellipse peelhull
Polar (Bray-Curtis) Ordinationeigenvals eigenvals.polarord plot.polarord polarord sppscores<- sppscores<-.polarord
Relative Zooplankton Abundances in Pondspond
Position Vector and Species Vector Ordinationplot.posvectord posvectord spvectord
Rao's Quadratic Entropy and Dissimilaritydistrao qrao raostand
Decorana: R implementationrdecorana scores.rdecorana
Rebuild Communities from Rarefied Piecesrecomm
Residual Species Associations in Constrained Ordinationresassoc.cca
Binary Threshold for Continuous Fitted Responserespthresh
Smoothly Detrended Correspondence Analysissdca
Compare Slopes of Mantel Regression Within and Across Blocksplot.slopediff slopediff slopediff2 summary.slopediff
Dune Scrub Vegetation in Spurn Point, Yorkshirespurn
Extract Subdiagonal from Dissimilarities or from a Square Matrixsubdiag
Generate Communities as Random Poisson from Swan Expectationsswanrandom
Clarke's Taxonomic Community Dissimilaritytaxondist