Classifying organisms and artefacts by their outline shapes
Salili-James, A.; Mackay, A.; Rodriguez-Alvarez, E.; Rodriguez-Perez, D.; Mannack, T.; Rawlings, T.A.; Palmer, A.R.; Todd, J.; Riutta, T.E.; Macinnis-Ng, C.; Han, Z.; Davies, M.; Thorpe, Z.; Marsland, S.; Leroi, A.M. (2022). Classifying organisms and artefacts by their outline shapes. J. R. Soc. Interface 19(195): 20220493. https://dx.doi.org/10.1098/rsif.2022.0493
In: Journal of the Royal Society. Interface. The Royal Society: London. ISSN 1742-5689; e-ISSN 1742-5662, more
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| Authors | | Top |
- Salili-James, A.
- Mackay, A.
- Rodriguez-Alvarez, E.
- Rodriguez-Perez, D.
- Mannack, T.
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- Rawlings, T.A.
- Palmer, A.R.
- Todd, J.
- Riutta, T.E.
- Macinnis-Ng, C.
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- Han, Z.
- Davies, M.
- Thorpe, Z.
- Marsland, S.
- Leroi, A.M.
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| Abstract |
We often wish to classify objects by their shapes. Indeed, the study of shapes is an important part of many scientific fields, such as evolutionary biology, structural biology, image processing and archaeology. However, mathematical shape spaces are rather complicated and nonlinear. The most widely used methods of shape analysis, geometric morphometrics, treat the shapes as sets of points. Diffeomorphic methods consider the underlying curve rather than points, but have rarely been applied to real-world problems. Using a machine classifier, we tested the ability of several of these methods to describe and classify the shapes of a variety of organic and man-made objects. We find that one method, based on square-root velocity functions (SRVFs), outperforms all others, including a standard geometric morphometric method (eigenshapes), and that it is also superior to human experts using shape alone. When the SRVF approach is constrained to take account of homologous landmarks it can accurately classify objects of very different shapes. The SRVF method identifies a shortest path between shapes, and we show that this can be used to estimate the shapes of intermediate steps in evolutionary series. Diffeomorphic shape analysis methods, we conclude, now provide practical and effective solutions to many shape description and classification problems in the natural and human sciences. |
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