Function reference • morphospace

morphospace workflow functions for generating, populating, and regenerating morphospaces
`mspace()`	Generate morphospace
`proj_shapes()`	Project shapes into morphospace
`proj_groups()`	Delimit groups in morphospace
`proj_phylogeny()`	Project phylogenetic structure into morphospace
`proj_axis()`	Project a morphometric axis into morphospace
`proj_landscape()`	Project landscape into morphospace
`plot_mspace()`	Plot morphospaces and combine them with other variables
`print(<mspace>)`	Print `"mspace"` objects
multivariate methods functions for ordination of multivariate data
`phy_prcomp()`	Phylogenetic Principal Component Analysis
`phyalign_comp()`	Phylogenetically Aligned Component Analysis
`bg_prcomp()`	Between-groups Principal Component Analysis
`pls2b()`	Two-blocks Partial Least Squares
`pls_shapes()`	2B Partial Least Squares for shape data
`burnaby()`	Burnaby's orthogonal subspace computation
`exp_var()`	Calculate percentages of variation accounted by ordination axes
shape operations functions to perform various transformations/manipulations of shape data
`expected_shapes()`	Compute mean/expected shape(s)
`detrend_shapes()`	Remove shape variation associated to external variables
`correct_efourier()`	Correct artificially rotated set of Fourier shapes interactively
`ax_transformation()`	Compute shapes at the extremes of a morphometric axis
`extract_shapes()`	Retrieve / compute shapes from an existing morphospace
`rotate_coords()`	Rotate x,y coordinates
internal functions functions used internally by morphospace
`rev_eigen()`	Reverse eigenanalysis-based ordination
`proj_eigen()`	Project cases into existing eigenanalysis-based ordination
`svd_block()`	Singular value decomposition for 2 blocks of variables
`inv_efourier()`	Inverse Fourier transform
`shapes_mat()`	Identify and arrange shape descriptors
`adjust_models2d()`	Adjust aspect and scale of background shape models for 2D data
`adjust_models3d()`	Adjust aspect and scale of background shape models for 3D data
`morphogrid()`	Generate background shape models
`plot_morphogrid2d()`	Plot background 2D shape models
`plot_morphogrid3d()`	Plot background 3D shape models
`rotate_fcoef()`	Rotate Fourier shape 180 degrees
`plot_phenogram()`	Plot phenogram
`ellipses_by_group_2D()`	Plot 2D confidence ellipses for a series of groups
`hulls_by_group_2D()`	Plot 2D convex hulls for a series of groups
`density_by_group_2D()`	Plot univariate density distributions for a series of groups
`col2hex()`	Express colors as hexadecimal coding
`plot_univ_scatter()`	Plot scatterpoints into univariate morphospace
`plot_biv_scatter()`	Plot scatterpoints into bivariate morphospace
`plot_univ_landscape()`	Plot univariate landscape into morphospace
`plot_biv_landscape()`	Plot bivariate landscape into morphospace
miscellaneous
`pile_shapes()`	Pile shapes
`build_template2d()`	Build template for 2D shape data
`hulls_by_group_3D()`	Plot 3D convex hulls for a series of groups
data build-in data sets
`tails`	Tyrannus tail shape data set
`wings`	Drosophila wing shape data set
`shells`	Ptychomya shell outlines data set
`shells3D`	Steinmanella shell surfaces data set

Reference

morphospace workflow

multivariate methods

shape operations

internal functions

miscellaneous

data