Drishti Paint 3.2: a new open-source tool for both 2D and 3D segmentation

doi:10.19615/j.cnki.2096-9899.240619

Vertebrata Palasiatica ›› 2024, Vol. 62 ›› Issue (4): 313-320.DOI: 10.19615/j.cnki.2096-9899.240619

Drishti Paint 3.2: a new open-source tool for both 2D and 3D segmentation

WANG Meng-Jun¹^,², Ajay LIMAYE³, LU Jing¹^,²^,^*()

1 Key Laboratory of Vertebrate Evolution and Human Origins of Chinese Academy of Sciences, Institute of VertebratePaleontology and Paleoanthropology, Chinese Academy of Sciences Beijing 100044
2 University of Chinese Academy of Sciences Beijing 100049
3 National Computational Infrastructure, Australian National University Canberra ACT 2601

Received:2024-05-17 Online:2024-10-20 Published:2024-10-18
Contact: *lujing@ivpp.ac.cn

Drishti Paint 3.2: 一种开源的综合二维与三维分割的新工具

王梦君¹^,², 卢静¹^,²^,^*()

1 中国科学院古脊椎动物与古人类研究所，中国科学院脊椎动物演化与人类起源重点实验室北京 100044
2 中国科学院大学北京 100049
3 澳大利亚国家计算中心，澳大利亚国立大学堪培拉 ACT 2601

基金资助:
国家自然科学基金(42130209)

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Abstract

Abstract:

X-ray computed tomography (CT) has been an important technology in paleontology for several decades. It helps researchers to acquire detailed anatomical structures of fossils non-destructively. Despite its widespread application, developing an efficient and user-friendly method for segmenting CT data continues to be a formidable challenge in the field. Most CT data segmentation software operates on 2D interfaces, which limits flexibility for real-time adjustments in 3D segmentation. Here, we introduce Curves Mode in Drishti Paint 3.2, an open-source tool for CT data segmentation. Drishti Paint 3.2 allows users to manually or semi-automatically segment the CT data in both 2D and 3D environments, providing a novel solution for revisualizing CT data in paleontological studies.

Key words: X-ray computed tomography (CT), 2D and 3D segmentation, 3D reconstruction, Drishti Paint

摘要：

计算机断层扫描(CT)技术在近几十年来被广泛应用于古生物学相关研究领域。研究者借助CT扫描技术可以无损获得化石内部精细信息，进一步对材料进行深入研究。但是，如何对CT数据进行高效的三维分割与重建仍是研究者们在使用三维数据时面临的主要问题。大多数CT数据分割软件都采用二维分割的传统方法，难以直接对三维结果进行实时修正。介绍了三维可视化开源软件Drishti Paint 3.2版本中的曲线模式(Curves Mode)及其使用方法。该软件为研究者提供了同时在二维切片及三维窗口手动或半自动分割CT数据的新工具，为如何对古生物学研究中化石CT数据进行高效的三维分割与重建提供了新思路。

关键词: 计算机断层扫描(CT), 二维与三维分割, 三维重建, Drishti Paint

CLC Number:

TP391.4

WANG Meng-Jun, Ajay LIMAYE, LU Jing. Drishti Paint 3.2: a new open-source tool for both 2D and 3D segmentation. Vertebrata Palasiatica, 2024, 62(4): 313-320.

王梦君, 卢静. 2024, 62(4): 313-320, Drishti Paint 3.2: 一种开源的综合二维与三维分割的新工具. 古脊椎动物学报.

Figures/Tables 2

Fig. 1 General workflow of Drishti Paint 3.2 The core steps are shown here, more detailed procedures are displayed in the supplementary materials

Fig. 2 Segmentation of the right operculum of a bichir Erpetoichthys in Drishti Paint 3.2---222A. original data of the whole specimen shown in Drishti Import 3.2; B. original 3D morphological data (right lateral view) shown in the 3D Viewer of Drishti Paint 3.2; C. extracted region of interest; D. working interface of Drishti Paint 3.2 under Curves Mode; E. segmented right operculum; i. 3D interface showing the right operculum to be segmented; ii. Z-axial view; iii. Y-axial view; iv. X-axial view

References 15

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Drishti Paint 3.2: a new open-source tool for both 2D and 3D segmentation

Drishti Paint 3.2: 一种开源的综合二维与三维分割的新工具

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