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URL: https://dx.doi.org/DOI:10.17504/protocols.io.bdeii3ce

Authors: Alexander Ordynets, Sarah Keßler, Christina Willemsens

Summary: The protocol explains extracting and quantifying the shape and size information from the fungal spores. The complex information about the outline will be transformed into few values that can be used as shape descriptors in comparative analyses. The photos of spores from the light microscopy serve as input data. The shape information is processed with the elliptic Fourier analysis and afterward with the principal component analysis (PCA). The size information is captured as linear measurements of length and width. The average per specimen values for shape and size traits are then calculated in R computing environment. The protocol can be also applied to the images from other kinds of microscopy or to images of macroscopic objects (plants, animals, or their organs). The protocol contains example files and screenshots that should assist in the processing of own data. See "Materials" for the list of used software and "Guidelines and Warnings" for the flowchart illustrating the protocol.

Affiliations: Universität Kassel, Universität Kassel, Universität Kassel

Version: 1

Publication Date: 2021

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