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