Geometric Morphometric Analyses of 2D/3D Landmark Data

advanced.procD.lm | Procrustes ANOVA and pairwise tests for shape data, using... |

arrayspecs | Convert landmark data matrix into array (p x k x n) |

bilat.symmetry | Analysis of bilateral symmetry |

buildtemplate | Build 3D surface template |

combine.subsets | Combine separate landmark configurations |

compare.evol.rates | Comparing net rates of shape evolution on phylogenies |

compare.multi.evol.rates | Comparing net rates of shape evolution among traits on... |

compare.pls | Comparisons of Effect Sizes from Partial Least Squares |

coords.subset | Subset landmark coordinates via a factor |

define.links | Define links between landmarks |

define.modules | Define modules (landmark partitions) |

define.sliders | Select points to "slide" along curves |

digit.curves | Calculate semilandmarks along a curve |

digit.fixed | Digitize 3D landmarks on mesh3d object |

digitize2d | Digitize 2D landmarks on .jpg files |

digitsurface | Digitize 3D fixed landmarks and surface semilandmarks |

editTemplate | Edit 3D template |

estimate.missing | Estimate locations of missing landmarks |

findMeanSpec | Identify specimen closest to the mean of a set of aligned... |

fixed.angle | Rotate a subset of 2D landmarks to common articulation angle |

geomorph.data.frame | Create a data frame with shape data |

geomorph-package | Geometric morphometric analyses for 2D/3D data |

globalIntegration | Quantify global integration relative to self-similarity |

gpagen | Generalized Procrustes analysis of points, curves, and... |

gridPar | Set up parameters for grids, points, and links in... |

hummingbirds | Landmark data from hummingbird bills (includes sliding... |

integration.test | Quantify morphological integration between modules |

interlmkdist | Calculate linear distances between landmarks |

larvalMorph | Head and tail shapes of larval salamanders |

modularity.test | Evaluate the degree of modular signal in morphometric... |

morphol.disparity | Morphological disparity for one or more groups of specimens |

mosquito | Landmarks on mosquito wings |

motionpaths | Simulated motion paths |

mshape | Estimate mean shape for a set of aligned specimens |

nested.update | Update procD.lm objects with nested effects |

phylo.integration | Quantify phylogenetic morphological integration between two... |

phylo.modularity | Evaluate the degree of phylogenetic modular signal in... |

physignal | Assessing phylogenetic signal in morphometric data |

plethodon | Landmark data from Plethodon salamander heads |

plethShapeFood | Head shape and food use data from Plethodon salamanders |

plethspecies | Average head shape and phylogenetic relationships for several... |

plot.advanced.procD.lm | Plot Function for geomorph |

plotAllSpecimens | Plot landmark coordinates for all specimens |

plot.bilat.symmetry | Plot Function for geomorph |

plot.CR | Plot Function for geomorph |

plot.CR.phylo | Plot Function for geomorph |

plot.evolrate | Plot Function for geomorph |

plotGMPhyloMorphoSpace | Plot phylogenetic tree and specimens in tangent space |

plot.gpagen | Plot Function for geomorph |

plotOutliers | Find potential outliers |

plot.physignal | Plot Function for geomorph |

plot.pls | Plot Function for geomorph |

plot.procD.allometry | Plot Function for geomorph |

plot.procD.lm | Plot Function for geomorph |

plotRefToTarget | Plot shape differences between a reference and target... |

plotspec | Plot 3D specimen, fixed landmarks and surface semilandmarks |

plotTangentSpace | Plot specimens in tangent space |

plot.trajectory.analysis | Plot Function for geomorph |

print.advanced.procD.lm | Print/Summary Function for geomorph |

print.bilat.symmetry | Print/Summary Function for geomorph |

print.combined.set | Print/Summary Function for geomorph |

print.compare.pls | Print/Summary Function for geomorph |

print.CR | Print/Summary Function for geomorph |

print.CR.phylo | Print/Summary Function for geomorph |

print.evolrate | Print/Summary Function for geomorph |

print.evolrate1 | Print/Summary Function for geomorph |

print.gpagen | Print/Summary Function for geomorph |

print.morphol.disparity | Print/Summary Function for geomorph |

print.physignal | Print/Summary Function for geomorph |

print.plotTangentSpace | Print/Summary Function for geomorph |

print.pls | Print/Summary Function for geomorph |

print.procD.allometry | Print/Summary Function for geomorph |

print.procD.lm | Print/Summary Function for geomorph |

print.trajectory.analysis | Print/Summary Function for geomorph |

procD.allometry | Procrustes ANOVA/regression, specifically for shape-size... |

procD.lm | Procrustes ANOVA/regression for shape data |

procD.pgls | Phylogenetic ANOVA/regression for shape data |

pupfish | Landmarks on pupfish |

ratland | Landmark data from dataset rat |

readland.nts | Read landmark data matrix from nts file |

readland.tps | Read landmark data from tps file |

read.morphologika | Read landmark data from Morphologika file(s) |

readmulti.nts | Read landmark data from multiple nts files |

read.ply | Read mesh data (vertices and faces) from ply files |

scallopPLY | 3D scan of a scallop shell from a .ply file in mesh3d format |

scallops | Landmark data from scallop shells |

shape.predictor | Shape prediction from numeric predictors |

summary.advanced.procD.lm | Print/Summary Function for geomorph |

summary.bilat.symmetry | Print/Summary Function for geomorph |

summary.combined.set | Print/Summary Function for geomorph |

summary.compare.pls | Print/Summary Function for geomorph |

summary.CR | Print/Summary Function for geomorph |

summary.CR.phylo | Print/Summary Function for geomorph |

summary.evolrate | Print/Summary Function for geomorph |

summary.evolrate1 | Print/Summary Function for geomorph |

summary.gpagen | Print/Summary Function for geomorph |

summary.morphol.disparity | Print/Summary Function for geomorph |

summary.physignal | Print/Summary Function for geomorph |

summary.plotTangentSpace | Print/Summary Function for geomorph |

summary.pls | Print/Summary Function for geomorph |

summary.procD.allometry | Print/Summary Function for geomorph |

summary.procD.lm | Print/Summary Function for geomorph |

summary.trajectory.analysis | Print/Summary Function for geomorph |

trajectory.analysis | Quantify and compare shape change trajectories |

two.b.pls | Two-block partial least squares analysis for shape data |

two.d.array | Convert (p x k x n) data array into 2D data matrix |

warpRefMesh | Creates a mesh3d object warped to the mean shape |

warpRefOutline | Creates a 2D outline warped to the mean shape |

writeland.tps | Write landmark data to tps file |

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