Reference

All functions

add_spp_site_scores()

Adds species and site score layers to an existing plot

arrow_mul()

Scale Vectors to Data

autoplot(<anosim>)

ggplot-based plot for objects of class "anosim"

autoplot(<cca>)

ggplot-based plot for objects of class "cca"

autoplot(<decorana>)

ggplot-based plot for objects of class "decorana"

autoplot(<envfit>)

ggplot-based plot for envfit objects

autoplot(<fisherfit>)

Plot Fisher's log-series

autoplot(<isomap>)

ggplot-based plot for objects of class "isomap"

autoplot(<metaMDS>)

ggplot-based plot for objects of class "metaMDS"

autoplot(<poolaccum>)

ggplot-based plot for objects of class "poolaccum"

autoplot(<prc>)

ggplot-based plot for objects of class "prc"

autoplot(<prestonfit>)

Plot Preston's log-normal model of species abundance

autoplot(<rda>)

ggplot-based plot for objects of class 'rda'

check_user_layers()

Check user-supplied layers against list of valid layers

fortify(<anosim>)

Fortify analysis of similarities (ANOSIM) results

fortify(<cca>)

Fortify a "cca" object.

fortify(<decorana>)

Fortify a "decorana" object.

fortify(<envfit>)

Fortify method for envfit objects

fortify(<fisherfit>)

Tidied species rank abundance data and estimated Fisher's log-series

fortify(<isomap>)

Fortify isometric feature mapping results

fortify(<metaMDS>)

Fortify a "mataMDS" object.

fortify(<poolaccum>)

Fortify extrapolated species richness of a species pool

fortify(<prc>)

Fortify a "prc" object

fortify(<prestonfit>)

Tidied species octave abundance data

geom_ordi_arrow()

Add a biplot arrow layer to an ordiggplot

geom_ordi_axis()

Crosshair for axes in eigenvector methods

geom_ordi_label()

Add a label layer to an ordiggplot

geom_ordi_point()

Add a point layer to an ordiggplot

geom_ordi_text()

Add a text layer to an ordiggplot

getDimensionNames()

Extract the names of the dimensions to plot as a character vector

label_fun()

Adds a label layer using one of a set of common geoms

layer_draw_list()

List of layers to draw for a given vegan object

ordiggplot() ggscores()

Create a ggplot Object

scoresLength()

Number of scores

stat_vectorfit()

Add Fitted Vectors to Ordination plots

valid_layers()

Valid layers for vegan objects