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  MIA-Clustering: A novel method for segmentation of paleontological material

Dunmore, C. J., Wollny, G., & Skinner, M. M. (2018). MIA-Clustering: A novel method for segmentation of paleontological material. PeerJ, 6: e4374. doi:10.7717/peerj.4374.

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Dunmore_MIA-Custering_PeerJ_2018.pdf (Publisher version), 25MB
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Dunmore_MIA-Custering_PeerJ_2018.pdf
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2018
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This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ) and either DOI or URL of the article must be cited.

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 Creators:
Dunmore, Christopher J., Author
Wollny, Gert, Author
Skinner, Matthew M.1, Author              
Affiliations:
1Department of Human Evolution, Max Planck Institute for Evolutionary Anthropology, Max Planck Society, ou_1497673              

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Free keywords: Digital image processing; Fossil; Machine-learning; Micro-CT; Trabecular bone
 Abstract: Paleontological research increasingly uses high-resolution micro-computed tomography (μCT) to study the inner architecture of modern and fossil bone material to answer important questions regarding vertebrate evolution. This non-destructive method allows for the measurement of otherwise inaccessible morphology. Digital measurement is predicated on the accurate segmentation of modern or fossilized bone from other structures imaged in μCT scans, as errors in segmentation can result in inaccurate calculations of structural parameters. Several approaches to image segmentation have been proposed with varying degrees of automation, ranging from completely manual segmentation, to the selection of input parameters required for computational algorithms. Many of these segmentation algorithms provide speed and reproducibility at the cost of flexibility that manual segmentation provides. In particular, the segmentation of modern and fossil bone in the presence of materials such as desiccated soft tissue, soil matrix or precipitated crystalline material can be difficult. Here we present a free open-source segmentation algorithm application capable of segmenting modern and fossil bone, which also reduces subjective user decisions to a minimum. We compare the effectiveness of this algorithm with another leading method by using both to measure the parameters of a known dimension reference object, as well as to segment an example problematic fossil scan. The results demonstrate that the medical image analysis-clustering method produces accurate segmentations and offers more flexibility than those of equivalent precision. Its free availability, flexibility to deal with non-bone inclusions and limited need for user input give it broad applicability in anthropological, anatomical, and paleontological contexts.

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Language(s): eng - English
 Dates: 2018-02-23
 Publication Status: Published online
 Pages: -
 Publishing info: -
 Table of Contents: -
 Rev. Type: Peer
 Identifiers: DOI: 10.7717/peerj.4374
 Degree: -

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Title: PeerJ
  Alternative Title : PeerJ
Source Genre: Journal
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Publ. Info: London : PeerJ Inc
Pages: - Volume / Issue: 6 Sequence Number: e4374 Start / End Page: - Identifier: ISSN: 2167-8359