%0 Journal Article
%T Facilitating the Automatic Characterisation, Classification and Description of Biological Images with the VisionBioShape Package for R
%A Biel Stela
%A Antonio Monle¨Žn-Getino
%J Open Access Library Journal
%V 3
%N 10
%P 1-16
%@ 2333-9721
%D 2016
%I Open Access Library
%R 10.4236/oalib.1103108
%X
Here, we present the VisioBioshapeR package for R [R
Core, 2014]. This new library is a comprehensive, multifunctional toolbox designed to
automatically analyse biological images. The package extends other common libraries (Momocs,
ShapeR) used for biological shape analysis by allowing the user to extract
closed contour outlines automatically from reading binary
images. Current functionalities of VisioBioshapeR include: random extraction of
image coordinates, analysis of the shape of a biological image by the elliptic
Fourier descriptor (EFD) method, extraction of an image characteristic vector
using multivariate principal component analysis (PCA) and geometrical analysis.
The image vector of characteristics can be directly exported to a wide range of
statistical packages in R and can be used to perform classification or other
types of analysis in order to sort new images into classes. The package could
prove useful in studies of any two-dimensional images and is presented with
three examples of its application in ecology. The library is useful when
multiple images are processed at a time and we wish to automate their analysis
for example for recognition of images from patterns.
%K Computer Vision
%K Biological Images
%K Ecology
%K Statistics
%K Elliptic Fourier Descriptor
%K Principal Component Analysis
%U http://www.oalib.com/paper/5275233