habtools: an R package to calculate 3D metrics for surfaces and objects

Nina Schiettekatte; Mollie Asbury; Guanyan Keelung Chen; Maria Dornelas; Jessica Reichert; Damaris Torres-Pulliza; Kyle J.A. Zawada; Joshua S. Madin

doi:10.1111/2041-210X.70027

habtools: an R package to calculate 3D metrics for surfaces and objects

Nina Schiettekatte^*, Mollie Asbury, Guanyan Keelung Chen, Maria Dornelas, Jessica Reichert, Damaris Torres-Pulliza, Kyle J.A. Zawada, Joshua S. Madin

^*Corresponding author for this work

Research output: Contribution to journal › Article › peer-review

Abstract

1. Technological advances in three imaging techniques have opened the door to advanced morphological analyses and habitat mapping for biologists and ecologists.
2. At the same time, the challenge of translating complex 3D data into meaningful metrics that can be used in conjunction with biological data currently hinders progress and accessibility.
3. We introduce habtools, an R package that provides R functions to efficiently calculate complexity and shape metrics from DEMs, 3D meshes and 2D shapes as well as some helper functions to facilitate workflow.
4. We expect the functionality of habtools to continue to expand as new metrics and faster methods become available, and we welcome new contributions and ideas.

Original language	English
Pages (from-to)	895-903
Number of pages	9
Journal	Methods in Ecology and Evolution
Volume	16
Issue number	5
Early online date	7 Apr 2025
DOIs	https://doi.org/10.1111/2041-210X.70027
Publication status	Published - May 2025

Keywords

3D
Digital elevation model
Fractal dimension
Mesh
Metrics
R package
Structural complexity

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10.1111/2041-210X.70027Licence: CC BY-NC

Schiettekatte-et-al-2025-habtools-an-R-package-MEE-16-895-CCBYNC
Copyright © 2025 The Author(s). Methods in Ecology and Evolution published by John Wiley & Sons Ltd on behalf of British Ecological Society. This is an open access article under the terms of the Creative Commons Attribution-NonCommercial License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited and is not used for commercial purposes.
Final published version, 1.56 MBLicence: CC BY-NC

Code and data for "habtools: an R package to calculate 3D metrics for surfaces and objects"
Schiettekatte, N. (Creator), Asbury, M. (Creator), Chen, G.-Y. (Creator), Dornelas, M. (Creator), Reichert, J. (Creator), Torres-Pulliza, D. (Creator), Zawada, K. (Creator) & Madin, J. (Creator), Zenodo, 21 Sept 2024
DOI: 10.5281/zenodo.13821908
Dataset

Cite this

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title = "habtools: an R package to calculate 3D metrics for surfaces and objects",

abstract = "1. Technological advances in three imaging techniques have opened the door to advanced morphological analyses and habitat mapping for biologists and ecologists. 2. At the same time, the challenge of translating complex 3D data into meaningful metrics that can be used in conjunction with biological data currently hinders progress and accessibility. 3. We introduce habtools, an R package that provides R functions to efficiently calculate complexity and shape metrics from DEMs, 3D meshes and 2D shapes as well as some helper functions to facilitate workflow. 4. We expect the functionality of habtools to continue to expand as new metrics and faster methods become available, and we welcome new contributions and ideas.",

keywords = "3D, Digital elevation model, Fractal dimension, Mesh, Metrics, R package, Structural complexity",

author = "Nina Schiettekatte and Mollie Asbury and Chen, {Guanyan Keelung} and Maria Dornelas and Jessica Reichert and Damaris Torres-Pulliza and Zawada, {Kyle J.A.} and Madin, {Joshua S.}",

note = "Funding: NSFGEO-NERC. Grant Number: 1948946.",

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doi = "10.1111/2041-210X.70027",

language = "English",

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AU - Schiettekatte, Nina

AU - Asbury, Mollie

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AU - Dornelas, Maria

AU - Reichert, Jessica

AU - Torres-Pulliza, Damaris

AU - Zawada, Kyle J.A.

AU - Madin, Joshua S.

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AB - 1. Technological advances in three imaging techniques have opened the door to advanced morphological analyses and habitat mapping for biologists and ecologists. 2. At the same time, the challenge of translating complex 3D data into meaningful metrics that can be used in conjunction with biological data currently hinders progress and accessibility. 3. We introduce habtools, an R package that provides R functions to efficiently calculate complexity and shape metrics from DEMs, 3D meshes and 2D shapes as well as some helper functions to facilitate workflow. 4. We expect the functionality of habtools to continue to expand as new metrics and faster methods become available, and we welcome new contributions and ideas.

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KW - Digital elevation model

KW - Fractal dimension

KW - Mesh

KW - Metrics

KW - R package

KW - Structural complexity

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DO - 10.1111/2041-210X.70027

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ER -

habtools: an R package to calculate 3D metrics for surfaces and objects

Abstract

Keywords

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Code and data for "habtools: an R package to calculate 3D metrics for surfaces and objects"

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