KMEDOIDS
Pairwise Multivariate analyses of variance
(Metric) multidimensional scaling
Ptolemaic ellipses and illustration of efourier
Builds an OpnCoe object
Quantitative calibration, through deviations, for Out and Opn objects
Quantitative calibration, through harmonic power, for Out and Opn objects
Builds an Out object
Linear Discriminant Analysis on Coe objects
Builds an OutCoe object
Helps to select a given number of harmonics from a numerical vector.
Shape variation along PC axes
Boxplot on PCA objects
Centers coordinates
Calculates the calliper length
Principal component analysis on Coe objects
Tests if shapes are (likely) developping clockwise or anticlockwise
Closes/uncloses shapes
Returns the distance between everypoints and the centroid
Convert (x; y) coordinates to chaincoded coordinates
Retain groups with at least n shapes
Defines landmarks interactively
Rearrange a matrix of (typically Fourier) coefficients
Aligns coordinates
Convert complex to/from cartesian coordinates
Mean shape calculation for Coo, Coe, etc.
Hierarchical clustering
Aligns shapes along their 'calliper length'
Extract coordinates from a shape
Coe "super" class
Calculate centroid coordinates
Adds a shape to the current plot
Plots a single shape
Calculates Bezier coefficients from a shape
Calculates the convexity of a shape
Converts a numerical description of harmonic coefficients to a named list.
Calculates a shape from Bezier coefficients
Builds an Ldk object
Sample a proportion of coordinates (among points)
Some color palettes
coo_down
Retains coordinates with negative y-coordinates
Nearest intersection between a shape and a segment specified with an angle
Nearest intersection between a shape and a segment
Retains coordinates with negative x-coordinates
Slides coordinates in a particular direction
Boxplot of morphometric coefficients
Aligns shapes using their shortest radius
Rotates coordinates
Data: Outline coordinates of cephalic outlines of trilobite
Quantitative r2 calibration for Opn objects
Calculates coordinates of the bounding box
Calculate classification metrics on a confusion matrix
Slides coordinates
Calculate coordinates range
grindr layers for multivariate plots
Register Bookstein's coordinates
Calculates perimeter and variations
calibrate_reconstructions
Calibrate using reconstructed shapes
Calculates the (recursive) convex hull of a shape
Coo "super" class
Calculates the eccentricity of a shape
Calculates the elongation of a shape
Calculates the length of a shape
Plots a .jpg image
Calculates the tangent angle along the perimeter of a
shape
Calculates centroid size
Calculates the area of a shape
Checks shapes
Trims bottom coordinates from shape
Full Generalized Procrustes alignment between shapes with sliding landmarks
Test if shapes are closed
Truss measurement
Momocs' 'oscilloscope' for Fourier-based approaches
Flips shapes
Smoothes coordinates
Calculates the Haralick's circularity of a shape
Calculates the shortest euclidean distance found for every point of one
matrix among those of a second.
Plots sets of shapes.
Jitters shapes
Data: Measurement of iris flowers
Plots differences as (colored) segments aka a ruban
grindr drawers for shape plots
Rotates shapes with a custom center
Data: Outline coordinates of beer and whisky bottles.
Samples coordinates (regular radius)
Sample coordinates (among points)
Exports Coe objects and shapes
Momocs
Plots (lollipop) differences between two configurations
Get paired individual on a Coe, PCA or LDA objects
Turn Momocs objects into tydy data_frames
Extract outline coordinates from multiple .jpg files
Reverses coordinates
Trims top coordinates from shape
Define tips as new landmarks
Split to several objects based on a factor
Multivariate analysis of (co)variance on Coe objects
Traditional morphometrics class
Calculates the rectangularity of a shape
Interpolates coordinates
Extract outline coordinates from a single .jpg file
Calculates the rectilinearity of a shape
Slides coordinates using the widest gap
Calculates the angle of every edge of a shape
Plots (lollipop) differences between two configurations
Adds new landmarks on Out and Opn objects
Smoothes coordinates on curves
Calculates harmonic power given a list from e/t/rfourier
Aligns shapes along the x-axis
Retains coordinates with positive y-coordinates
Inverse radii variation Fourier transform
Data: Outline coordinates of North Sea fishes
Retains coordinates with positive x-coordinates
Builds an Opn object
Jitters Coe (and others) objects
Data: Outline coordinates from an experimental charring on cereal grains
Calculates the width of a shape
Data: Landmarks coordinates of mosquito wings
Inverse elliptical Fourier transform
Data: Landmark and semilandmark coordinates on cereal glumes
Elliptical Fourier transform (and its normalization)
Defines links between landmarks
Removes rotation so that the centroid and a given point are parallel to the x-axis
Extracts sliding landmarks coordinates
Scales coordinates
Draws kernel density contours around landmark
Calculates euclidean distance every pairs of points in two matrices.
Register new baselines
Calculates length and width of a shape
Counts coordinates
Calculates all scalar descriptors of shape
Objects exported from other packages
Translates coordinates
Dissolve Coe objects
Inverse radii variation Fourier transform
KMEANS on PCA objects
Data: Outline coordinates of mouse molars
Calculates the solidity of a shape
Data: Outline coordinates of mosquito wings.
Rename columns by name
A wrapper to calculates euclidean distances between two points
Data: Outline coordinates of Apodemus (wood mouse) mandibles
Removes harmonics from Coe objects
Arrange rows by variables
Non metric multidimensional scaling
Trims both ends coordinates from shape
bind_db.Coe <- bind_db.Coo
Extracts structure from filenames
Calculates and draws 'dfourier' shapes
Data: Outline coordinates of 360 molars
Color palettes
Data: Outline coordinates of olive seeds open outlines.
Data: Configuration of landmarks of oak leaves
Import coordinates from a .txt file
Binds .jpg outlines from .txt landmarks taken on them
Calculate natural polynomial fits on open outlines
Full Generalized Procrustes alignment between shapes
Data: Outline coordinates of hand-drawn hearts
Creates links (Delaunay triangulation) between landmarks
Investe discrete cosinus transform
Data: Outline coordinates of various shapes
Combine several objects
Calculates and draw 'rfourier' shapes.
Radii variation Fourier transform (equally spaced curvilinear abscissa)
Convert between different classes
Transparency helpers and palettes
Calculate abscissa and ordinate on a shape
Defines new landmarks on Out and Opn objects
Calculates and draw 'efourier' shapes.
Measures shape descriptors
Calculates the total absolute curvature of a shape
Calculates euclidean distance between two points.
grindr papers for shape plots
Calculates euclidean intermediate between two points.
Extract outlines coordinates from an image silhouette
import_StereoMorph_curve1
Import files creates by StereoMorph into Momocs
Permutes and breed Coe (and others) objects
Subset based on conditions
Draw radii to the current plot
Graphical inspection of shapes
Shears shapes
Forces shapes to close
Family picture of shapes
'Templates' shapes
Brew and serve fac from Momocs object
Morphospace layers
Add new variables
Checks 'ldk' shapes
Slices shapes between successive coordinates
Flips PCA axes
Class and component testers
Harmonic contribution to shape
Draws confidence ellipses for landmark positions
Inverse tangent angle Fourier transform
Creates links (all pairwise combinations) between landmarks
Silhouette plot
Plots Principal Component Analysis
Thin Plate Splines for 2D data
Family picture of shapes
Draws convex hulls around landmark positions
Plots Linear Discriminant Analysis
Plots confusion matrix of sample sizes within $fac
Calculates nice positions on a plane for drawing shapes
Subset based on positions
Remove shapes with missing data in fac
Plots a cross-validation table as an heatmap
Extracts partitions of sliding coordinates
Remove shapes with incomplete slices
Tests if coordinates likely have equally spaced radii
NMDS plot unsing grindr layers
Pairwise comparison of a list of shapes
Calcuates symmetry indices on OutCoe objects
Calculate orthogonal polynomial fits on open outlines
"Redo" a PCA on a new Coe
PCA plot using grindr layers
Partial Procrustes alignment between two shapes
Draws colored segments from a matrix of coordinates.
Rearrange, (select and reorder) landmarks to retain
Radii variation Fourier transform (equally spaced radii)
Graphical pile of shapes
Plots a cross-correlation table
Rescale coordinates from pixels to real length units
Full Procrustes alignment between two shapes
How many axes to retain this much of variance or trace ?
Sample n shapes
LDA plot using grindr layers
Deformation isolines using Thin Plate Splines.
Calculates and draw 'sfourier' shapes.
Vanilla Thin Plate Splines
Calculates shape from a polynomial model
Validates Coo objects
Identify outliers
"Redo" a LDA on new data
Add new landmarks based on angular positions
Plots mosaics of shapes.
Removes asymmetric and symmetric variation on OutCoe objects
Select columns by name
Calculates and draws 'tfourier' shapes.
Discrete cosinus transform
Tangent angle Fourier transform
Defines sliding landmarks matrix
Deformation 'vector field' using Thin Plate Splines
Calculates convex hull area/volume of PCA scores
Retrieves landmarks coordinates
Import a tps file
Sample a fraction of shapes
Add landmarks labels
Draws links between landmarks
Renames levels on Momocs objects
Subsetize various Momocs objects
Deformation grids using Thin Plate Splines