Welcome to the Amira-Avizo Software Use Case Gallery

Below you will find a collection of use cases of our 3D data visualization and analysis software. These use cases include scientific publications, articles, papers, posters, presentations or even videos that show how Amira-Avizo Software is used to address various scientific and industrial research topics.

Use the Domain selector to filter by main application area, and use the Search box to enter keywords related to specific topics you are interested in.

Using micro-computed tomography to reveal the anatomy of adult Diaphorina citri Kuwayama (Insecta: Hemiptera, Liviidae) and how it pierces and feeds within a citrus leaf

Using micro-computed tomography to reveal the anatomy of adult Diaphorina citri Kuwayama (Insecta: Hemiptera, Liviidae) and how it pierces and feeds within a citrus leaf

The Asian citrus psyllid (ACP), Diaphorina citri, is a harmful pest of citrus trees that transmits Candidatus Liberibacter spp. which causes Huanglongbing (HLB) (citrus greening disease); this is considered to be the most serious bacterial disease of citrus plants.

Here we detail an anatomical study of the external and internal anatomy (excluding the reproductive system) using micro-computed tomography (micro-CT). This is the first complete 3D micro-CT reconstruction o... Read more

Javier Alba-Tercedor, Wayne B. Hunter & Ignacio Alba-Alejandre

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Machine learning‑based texture analysis for diferentiation of radiologically indeterminate small adrenal tumors on adrenal protocol CT scans

Machine learning‑based texture analysis for diferentiation of radiologically indeterminate small adrenal tumors on adrenal protocol CT scans

To evaluate the ability of radiomic feature extraction and a machine learning algorithm to diferentiate between benign
and malignant indeterminate adrenal lesions on contrast-enhanced computed tomography (CT) studies.

Adrenal “incidentalomas” are adrenal lesions that are accidentally discovered during workup not related to the adrenal glands; they have an incidence as high as 5%. Small adrenal incidentalomas (<4 cm) with high attenuation values on pre-contrast CT(>10 H... Read more

Ahmed W. Moawad, Ayahallah Ahmed, David T. Fuentes, John D. Hazle, Mouhammed A. Habra, Khaled M. Elsayes

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Nephrometric score based on 3D modeling (3D nephrometry score) for the probability prediction of intraand postoperative complications for kidney surgery

Nephrometric score based on 3D modeling (3D nephrometry score) for the probability prediction of intraand postoperative complications for kidney surgery

The purpose of the study is the development and evaluation of the informativeness of the author’s 3D nephrometric score application to predict the probability of intraoperative and postoperative complications in kidney operations.

The study includes 264 patients who underwent surgical treatment of renal tumors, before that CT and 3D modeling were carried out. All patients underwent an analysis of the surgical intervention complexity on the C-index, PADUA, R.E.N.A.L., and developed 3D... Read more

Georgiy Andreevich Mashin, Vasiliy Vladimirovich Kozlov, Denis Vladimirovich Chinenov, Yaroslav Nikolaevich Chernov, Alexandra Vladimirovna Proskura, Dmitry Olegovich Korolev , Dmitry Georgievich Tsarichenko, Leonid Mikhailovich Rapoport and Evgeniy Valerievich Shpot

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Demarcation of arteriopulmonary segments: a novel and effective method for the identification of pulmonary segments

Demarcation of arteriopulmonary segments: a novel and effective method for the identification of pulmonary segments

Each pulmonary segment is an anatomical and functional unit. However, it is fundamentally difficult to precisely distinguish every pulmonary segment using the conventional pulmonary intersegmental planes from computed tomography images. Building arteriopulmonary segments is likely to be an effective way to identify pulmonary segments.

The three-dimensional reconstructed images showed the branches of the pulmonary artery ramified up to their eighth order covering the entire lung as well... Read more

Huijie Gao, Chao Liu

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Microstructure analysis and image-based modelling of face masks for COVID-19 virus protection

Microstructure analysis and image-based modelling of face masks for COVID-19 virus protection

Until March 2021, around 120 million coronavirus disease (COVID-19) infected cases and over 2.6 million deaths have been reported worldwide. […] Recent investigations have implied that face masks help to reduce the disease transmission and therefore slow down the growth of the epidemic curve. However, there are still ongoing debates on the efficacy of wearing masks […] since there is a general lack of information relating to the material structure of commonly used face masks.Read more

Wenjia Du, Francesco Iacoviello, Tacson Fernandez, Rui Loureiro, Daniel J. L. Brett & Paul R. Shearing

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The visible skeleton 2.0: phenotyping of cartilage and bone in fixed vertebrate embryos and foetuses based on X-ray microCT

The visible skeleton 2.0: phenotyping of cartilage and bone in fixed vertebrate embryos and foetuses based on X-ray microCT

For decades, clearing and staining with Alcian Blue and Alizarin Red has been the gold standard to image vertebrate skeletal development. Here, we present an alternate approach to visualise bone and cartilage based on X-ray microCT imaging, which allows the collection of genuine 3D data of the entire developing skeleton at micron resolution.

Our novel protocol is based on ethanol fixation and staining with Ruthenium Red, and efficiently contrasts cartilage matrix, as demonstrated in wh... Read more

Simone Gabner, Peter Böck, Dieter Fink, Martin Glösmann, Stephan Handschuh

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A correlative approach for combining microCT, light and transmission electron microscopy in a single 3D scenario

A correlative approach for combining microCT, light and transmission electron microscopy in a single 3D scenario

In biomedical research, a huge variety of different techniques is currently available for the structural examination of small specimens, including conventional light microscopy (LM), transmission electron microscopy (TEM), confocal laser scanning microscopy (CLSM), microscopic X-ray computed tomography (microCT), and many others. Since every imaging method is physically limited by certain parameters, a correlative use of complementary methods often yields a significant broader range of inform... Read more

Stephan Handschuh, Natalie Baeumler, Thomas Schwaha & Bernhard Ruthensteiner

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3D computational anatomy of the scaphoid and its waist for use in fracture treatment

3D computational anatomy of the scaphoid and its waist for use in fracture treatment

A detailed understanding of scaphoid anatomy helps anatomic fracture reduction and optimal screw position. Therefore, we analyzed the size and shape variations of the cartilage and osseous surface, the distribution of volumetric bone mineral density (vBMD), and if the vBMD values differ between a peripheral and a central screw pathway?

Forty-three fresh frozen hand specimens (17 females, 26 males) were analysed with high-resolution peripheral quantitative computed tomography (HR-pQCT) ... Read more

Marc-Daniel Ahrend, Teun Teunis, Hansrudi Noser, Florian Schmidutz, Geoff Richards, Boyko Gueorguiev & Lukas Kamer

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3D analysis of enamel demineralisation in human dental caries using high-resolution, large field of view synchrotron X-ray micro-computed tomography

3D analysis of enamel demineralisation in human dental caries using high-resolution, large field of view synchrotron X-ray micro-computed tomography

 

Unprecedented combination of resolution, field of view and contrast for the analysis human enamel carious lesions was achieved. Synchrotron X-ray micro-computed tomography revealed sub-micron details of enamel rod and inter-rod regions inaccessible by laboratory tomography. Successful segmentation and labelling allowed the extraction of enamel etching patterns and statistics. Correlation was obtained between synchrotron X-ray micro-tomography and FIB-SEM cross-sec... Read more

Cyril Besnard, Robert A. Harper, Thomas E. J. Moxham, Jonathan D. James, Malte Storm, Enrico Salvati, Gabriel Landini, Richard M. Shelton, Alexander M.Korsunsky

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Scientists use Avizo to capture the complex dynamics of particle movement in granular materials

Scientists use Avizo to capture the complex dynamics of particle movement in granular materials

Scientists have for the first time captured the complex dynamics of particle movement in granular materials, helping to explain why mixed nuts often see the larger Brazil nuts gather at the top. This phenomenon, known as the ‘Brazil-nut effect’, has huge implications for industries where uneven mixing can critically degrade product quality. The findings could have vital impact on industries struggling with the phenomenon, such as pharmaceuticals and mining.

For th... Read more

Parmesh Gajjar, Chris G. Johnson, James Carr, Kevin Chrispeels, J. M. N. T. Gray & Philip J. Withers

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X-ray micro-computed tomography for 3D characterization of particle kinematics representing water-induced loess micro-fabric collapse

X-ray micro-computed tomography for 3D characterization of particle kinematics representing water-induced loess micro-fabric collapse

3D characterisation of the particle kinematics during loess collapse is performed based on X-ray micro-computed tomography.

Particle displacements and rotations associated with the collapse are determined.

The volumetric strain is shown to be significantly heterogeneous at single-particle scale.

The evolution of particle-to-particle contacts is found to be much more complex than previously stated.

 

An apparatus is specially designed to perf... Read more

B. Yu, W. Fan, J.H. Fan, T.A. Dijkstra, Y.N. Wei, T.T. Wei

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Phase-contrast and dark-field imaging for the inspection of resin-rich areas and fiber orientation in non-crimp vacuum infusion carbon-fiber-reinforced polymers

Phase-contrast and dark-field imaging for the inspection of resin-rich areas and fiber orientation in non-crimp vacuum infusion carbon-fiber-reinforced polymers

The high strength at moderate weight in combination with superior corrosion and fatigue properties makes carbon-fiber-reinforced polymer (CFRP) an attractive material for lightweight applications in aerospace. Nonetheless, besides several benefits, CFRP components also bear significant risks like a low resistance to impact damage. […] In this work, we present a multimodal approach to three-dimensionally quantify and visualize fiber orientation and resin-rich areas in carbon-fiber-reinf... Read more

Jonathan Glinz, Jan Šleichrt, Daniel Kytýř, Santhosh Ayalur-Karunakaran, Simon Zabler, Johann Kastner & Sascha Senck

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The Spontaneous Emulsification of Entrained Inclusions During Casting of High Aluminum Steels

The Spontaneous Emulsification of Entrained Inclusions During Casting of High Aluminum Steels

The cleanliness of liquid steel is defined by the amounts of dissolved unwanted impurities and precipitated unwanted non-metallic phases.[…] Improving the cleanliness of the steel would mean a lower fraction of impurities in the final product. […] A novel approach, utilizing controlled synthetic inclusion/metal samples, has been developed to study the reactions between free inclusion-slag droplets and steel. The technique combines High-Temperature Confocal Scanning Laser Microscop... Read more

Akalya Raviraj, Nadia Kourra, Mark A. Williams, Gert Abbel, Claire Davis, Wouter Tiekink, Seetharaman Sridhar & Stephen Spooner

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Thermal Runaway of a Li-Ion Battery Studied by Combined ARC and Multi-Length Scale X-ray CT

Thermal Runaway of a Li-Ion Battery Studied by Combined ARC and Multi-Length Scale X-ray CT

Lithium ion battery failure occurs across multiple length scales. In this work, the properties of thermal failure and its effects on electrode materials were investigated in a commercial battery using a combination of accelerating rate calorimetry (ARC) and multi-length scale X-ray computed tomography (CT). ARC measured the heat dissipated from the cell during thermal runaway and enabled the identification of key thermal failure characteristics such as onset temperature and the rate of heat g... Read more

Drasti Patel, James B. Robinson, Sarah Ball, Daniel J. L. Brett and Paul R. Shearing

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Hot-wire arc additive manufacturing of aluminum alloy with reduced porosity and high deposition rate

Hot-wire arc additive manufacturing of aluminum alloy with reduced porosity and high deposition rate

Wire arc additive manufacturing (WAAM) technology has attracted considerable interest in large-scale metallic components, but porosity and low deposition rate are the two dominating technical challenges in WAAM of aluminum alloy. In order to effectively solve these problems, a novel method of hot-wire arc additive manufacturing is used to fabricate aluminum alloy. Systematic studies are carried out to investigate the formation mechanism of the pores, the macro/microstructures, as well as the ... Read more

Rui Fu, Shuiyuan Tang, Jiping Lu, Yinan Cui, Zixiang Li, Haoru Zhang, Tianqiu Xu, Zhuo Chen, Changmeng Liu

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Porosity and Structure of Hierarchically Porous Ni/Al2O3 Catalysts for CO2 Methanation

Porosity and Structure of Hierarchically Porous Ni/Al2O3 Catalysts for CO2 Methanation

Carbon dioxide emissions must be reduced significantly to limit the negative consequences of climate change. For this reason, fossil fuels must be replaced by renewable energy sources. However, wind and solar energy, for example, are sporadic sources and, thus, not inevitably available when needed. This results in periods of energy surplus and shortage, which are not necessarily predictable. Hence, energy storage concepts are required to compensate for these fluctuations, thereby retaining en... Read more

Sebastian Weber, Ken L. Abel, Ronny T. Zimmermann, Xiaohui Huang, Jens Bremer, Liisa K. Rihko-Struckmann, Darren Batey, Silvia Cipiccia, Juliane Titus, David Poppitz, Christian Kübel, Kai Sundmacher, Roger Gläser, Thomas L. Sheppard

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Defect structure process maps for laser powder bed fusion additive manufacturing

Defect structure process maps for laser powder bed fusion additive manufacturing

Accurate detection, characterization, and prediction of defects has great potential for immediate impact in the production of fully-dense and defect free metal additive manufacturing (AM) builds. Accordingly, this paper presents Defect Structure Process Maps (DSPMs) as a means of quantifying the role of porosity as an exemplary defect structure in powder bed printed materials. Synchrotron-based micro-computed tomography (μSXCT) was used to demonstrate that metal AM defects follow predictable... Read more

Jerard V.Gordon, Sneha P.Narra, Ross W.Cunningham, He Liu, Hangman Chen, Robert M.Suter, Jack L.Beuth, Anthony D.Rollett

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High resolution X-ray computed tomography: A versatile non-destructive tool to characterize CFRP-based aircraft composite elements

High resolution X-ray computed tomography: A versatile non-destructive tool to characterize CFRP-based aircraft composite elements

The aim of the current study is to propose a versatile, non-destructive inspection strategy to evaluate the structure of two different aircraft carbon fibre reinforced polymer (CFRP) -based composite configurations, which are widely used for structural elements, respectively layered composite and sandwich structure. X-ray computed tomography (CT) has been used as a flexible method for assessment of porosity levels in CFRP components in both types of configuration, permitting to investigate th... Read more

Elena Dilonardo, Michele Nacucchi, Fabio De Pascalis, Mauro Zarrelli, Cinzia Giannini

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A virtual testing platform for filter materials and textile masks

A virtual testing platform for filter materials and textile masks

In order to provide the population with consistent and science-based advice on preferred materials for face masks, we are characterizing the microstructure of different materials using X-ray microfocus computed tomography (microCT), and we use these datasets to simulate the pressure drop (i.e. measure for breathability). We validate our measurements with physically measured filter efficiency and pressure drop, and in this way, we try to develop a “virtual testing platform” for the charac... Read more

The ContrasTTeam of Prof. dr. Greet Kerckhofs, UCLouvain and MTM

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3D characterisation of dry powder inhaler formulations

3D characterisation of dry powder inhaler formulations

Carrier-based dry powder inhaler (DPI) formulations need to be accurately characterised for their particle size distributions, surface roughnesses, fines contents and flow properties. Understanding the micro-structure of the powder formulation is crucial, yet current characterisation methods give incomplete information. Commonly used techniques like laser diffraction (LD) and optical microscopy (OM) are limited due to the assumption of sphericity and can give variable results depending on par... Read more

P. Gajjar, I.D. Styliari, T.T.H. Nguyen, J. Carr, X. Chen, J.A. Elliott, R.B. Hammond, T.L. Burnett, K. Roberts, P.J. Withers, D.Murnane

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Centre of Rotation of the Human Subtalar Joint Using Weight-Bearing Clinical Computed Tomography

Centre of Rotation of the Human Subtalar Joint Using Weight-Bearing Clinical Computed Tomography

The subtalar joint describes an articulation between talus and calcaneus, forming one of two joints of the hindfoot with the tibiotalar or ankle joint above the talus and the subtalar joint below. The talus comprises of three facets (anterior, middle and posterior) that articulate with the mating facets on the calcaneus at the subtalar joint. The bones are connected by a complex of ligamentous structures that connect the talus to the calcaneus and both structures to the adjacent navicular bon... Read more

Marta Peña Fernández, Dorela Hoxha, Oliver Chan, Simon Mordecai, Gordon W. Blunn, Gianluca Tozzi & Andy Goldberg

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