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Get unbent! R tools for the removal of arching and bending in fish specimens for geometric morphometric shape
1Department of Biology, Middle Tennessee State University, Murfreesboro, Tennessee, USA.
Journal of Fish Biology
|September 30, 2024
Summary
New R tools correct fish body posture artifacts in 3D geometric morphometrics. These methods improve the analysis of fish shape by accounting for bending in landmark data.
Area of Science:
- Ichthyology
- Biometry
- Computational Biology
Background:
- Geometric morphometrics is vital for fish body shape analysis.
- Specimen posture introduces significant artifacts in 3D morphometric data.
- Existing methods struggle to correct for complex posture variations.
Purpose of the Study:
- Introduce novel R language tools for correcting 3D landmark data.
- Address posture-induced bending artifacts in geometric morphometrics.
- Facilitate the use of 3D data in comparative fish shape studies.
Main Methods:
- Development of R tools based on the TPS suite's 'unbend specimens' methodology.
- Application of tools to correct multiple types of 3D data bending.
- Utilized a sample dataset of darter specimens.
Main Results:
- The R tools effectively corrected posture artifacts in the darter dataset.
- Corrected data showed improved separation across principal component axes.
- Demonstrated the utility of the tools for real-world morphometric analyses.
Conclusions:
- The new R tools provide a robust solution for posture correction in 3D fish morphometrics.
- These tools enhance the reliability and accuracy of fish body shape comparative analyses.
- Encourages wider adoption of 3D landmark data in ichthyological research.
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