scholarly journals Measuring fish and their physical habitats: versatile 2D and 3D video techniques with user-friendly software

2016 ◽  
Vol 73 (12) ◽  
pp. 1861-1873 ◽  
Author(s):  
Jason R. Neuswanger ◽  
Mark S. Wipfli ◽  
Amanda E. Rosenberger ◽  
Nicholas F. Hughes
Keyword(s):  
Oncorhynchus Tshawytscha ◽  
Three Dimensional ◽  
Field Studies ◽  
General Purpose ◽  
3D Video ◽  
Mathematical Methods ◽  
Terrestrial Animal ◽  
Close Range ◽  
Territorial Behaviors ◽  
User Friendly

Applications of video in fisheries research range from simple biodiversity surveys to three-dimensional (3D) measurement of complex swimming, schooling, feeding, and territorial behaviors. However, researchers lack a transparently developed, easy-to-use, general purpose tool for 3D video measurement and event logging. Thus, we developed a new measurement system, with freely available, user-friendly software, easily obtained hardware, and flexible underlying mathematical methods capable of high precision and accuracy. The software, VidSync, allows users to efficiently record, organize, and navigate complex 2D or 3D measurements of fish and their physical habitats. Laboratory tests showed submillimetre accuracy in length measurements of 50.8 mm targets at close range, with increasing errors (mostly <1%) at longer range and for longer targets. A field test on juvenile Chinook salmon (Oncorhynchus tshawytscha) feeding behavior in Alaska streams found that individuals within aggregations avoided the immediate proximity of their competitors, out to a distance of 1.0 to 2.9 body lengths. This system makes 3D video measurement a practical tool for laboratory and field studies of aquatic or terrestrial animal behavior and ecology.

scholarly journals Three-Dimensional Human Head Reconstruction Using Smartphone-Based Close-Range Video Photogrammetry

2021 ◽  
Vol 12 (1) ◽  
pp. 229
Author(s):  
Dalius Matuzevičius ◽  
Artūras Serackis
Keyword(s):  
Three Dimensional ◽  
Reconstruction Algorithm ◽  
Human Head ◽  
3D Models ◽  
General Purpose ◽  
Feature Points ◽  
Reconstruction Process ◽  
Reconstruction Quality ◽  
Close Range ◽  
Data Source

Creation of head 3D models from videos or pictures of the head by using close-range photogrammetry techniques has many applications in clinical, commercial, industrial, artistic, and entertainment areas. This work aims to create a methodology for improving 3D head reconstruction, with a focus on using selfie videos as the data source. Then, using this methodology, we seek to propose changes for the general-purpose 3D reconstruction algorithm to improve the head reconstruction process. We define the improvement of the 3D head reconstruction as an increase of reconstruction quality (which is lowering reconstruction errors of the head and amount of semantic noise) and reduction of computational load. We proposed algorithm improvements that increase reconstruction quality by removing image backgrounds and by selecting diverse and high-quality frames. Algorithm modifications were evaluated on videos of the mannequin head. Evaluation results show that baseline reconstruction is improved 12 times due to the reduction of semantic noise and reconstruction errors of the head. The reduction of computational demand was achieved by reducing the frame number needed to process, reducing the number of image matches required to perform, reducing an average number of feature points in images, and still being able to provide the highest precision of the head reconstruction.

scholarly journals Fast Overlap Detection between Hard-Core Colloidal Cuboids and Spheres. The OCSI Algorithm

Algorithms ◽  
2021 ◽  
Vol 14 (3) ◽  
pp. 72
Author(s):  
Luca Tonti ◽  
Alessandro Patti
Keyword(s):  
Colloidal Particles ◽  
Dynamic Properties ◽  
Wide Spectrum ◽  
Three Dimensional ◽  
Hard Core ◽  
Detection Algorithm ◽  
Three Dimensional Objects ◽  
Aggregation Behaviour ◽  
Sphere Radius ◽  
User Friendly

Collision between rigid three-dimensional objects is a very common modelling problem in a wide spectrum of scientific disciplines, including Computer Science and Physics. It spans from realistic animation of polyhedral shapes for computer vision to the description of thermodynamic and dynamic properties in simple and complex fluids. For instance, colloidal particles of especially exotic shapes are commonly modelled as hard-core objects, whose collision test is key to correctly determine their phase and aggregation behaviour. In this work, we propose the Oriented Cuboid Sphere Intersection (OCSI) algorithm to detect collisions between prolate or oblate cuboids and spheres. We investigate OCSI’s performance by bench-marking it against a number of algorithms commonly employed in computer graphics and colloidal science: Quick Rejection First (QRI), Quick Rejection Intertwined (QRF) and a vectorized version of the OBB-sphere collision detection algorithm that explicitly uses SIMD Streaming Extension (SSE) intrinsics, here referred to as SSE-intr. We observed that QRI and QRF significantly depend on the specific cuboid anisotropy and sphere radius, while SSE-intr and OCSI maintain their speed independently of the objects’ geometry. While OCSI and SSE-intr, both based on SIMD parallelization, show excellent and very similar performance, the former provides a more accessible coding and user-friendly implementation as it exploits OpenMP directives for automatic vectorization.

scholarly journals The Metano Modeling Toolbox MMTB: An Intuitive, Web-Based Toolbox Introduced by Two Use Cases

Metabolites ◽  
2021 ◽  
Vol 11 (2) ◽  
pp. 113
Author(s):  
Julia Koblitz ◽  
Sabine Will ◽  
S. Riemer ◽  
Thomas Ulas ◽  
Meina Neumann-Schaal ◽  
...  
Keyword(s):  
Metabolic Networks ◽  
Point Of View ◽  
Use Cases ◽  
Mathematical Methods ◽  
State Behavior ◽  
Web Based ◽  
Research Fields ◽  
Balance Analysis ◽  
Metabolic Models ◽  
User Friendly

Genome-scale metabolic models are of high interest in a number of different research fields. Flux balance analysis (FBA) and other mathematical methods allow the prediction of the steady-state behavior of metabolic networks under different environmental conditions. However, many existing applications for flux optimizations do not provide a metabolite-centric view on fluxes. Metano is a standalone, open-source toolbox for the analysis and refinement of metabolic models. While flux distributions in metabolic networks are predominantly analyzed from a reaction-centric point of view, the Metano methods of split-ratio analysis and metabolite flux minimization also allow a metabolite-centric view on flux distributions. In addition, we present MMTB (Metano Modeling Toolbox), a web-based toolbox for metabolic modeling including a user-friendly interface to Metano methods. MMTB assists during bottom-up construction of metabolic models by integrating reaction and enzymatic annotation data from different databases. Furthermore, MMTB is especially designed for non-experienced users by providing an intuitive interface to the most commonly used modeling methods and offering novel visualizations. Additionally, MMTB allows users to upload their models, which can in turn be explored and analyzed by the community. We introduce MMTB by two use cases, involving a published model of Corynebacterium glutamicum and a newly created model of Phaeobacter inhibens.

A user-friendly general-purpose predictive software package for food safety

2011 ◽  
Vol 104 (2) ◽  
pp. 173-185 ◽  
Author(s):  
Amit Halder ◽  
Ashish Dhall ◽  
Ashim K. Datta ◽  
D. Glenn Black ◽  
P.M. Davidson ◽  
...  
Keyword(s):  
Food Safety ◽  
Software Package ◽  
General Purpose ◽  
User Friendly ◽  
Predictive Software

A General-Purpose Software for Menu Design of CAD Projects

1993 ◽  
Author(s):  
Y. C. Pao
Keyword(s):  
Software Package ◽  
Computer Programs ◽  
General Purpose ◽  
Final Report ◽  
Sample Design ◽  
Main Menu ◽  
Sample Application ◽  
User Friendly ◽  
Four Bar Linkage ◽  
General Purpose Software

Abstract A software package MenuCAD has been developed for the general need of designing menu-driven, user-friendly CAD computer programs. The main menu is formatted similar to the major contents in the final report of the design project including Contents, Analysis, Sample Design Cases, Illustrations and Tables, References, and Program Listings. Sub-menus are further divided into items delineating the steps involved in the design. Screen help messages are provided for design of the main menu and sub-menus interactively and for applying the arrow keys on the keyboard to select a sub-menus and a particular item in the sub-menu in order to execute a desired design step. MenuCAD builds the framework, its user has to supplement with a subroutine ExecItem for describing the special features and for directing how each design step should be executed in the project. A CAD design of four-bar linkage project is presented as a sample application of this package.

scholarly journals Modern Geodetic Measurement Techniques in Gravimetric Studies on the Example of Gypsum Karst in the Siesławice Region

2018 ◽  
Vol 35 ◽  
pp. 03002 ◽  
Author(s):  
Sławomir Porzucek ◽  
Monika Łój ◽  
Karolina Matwij ◽  
Wojciech Matwij
Keyword(s):  
Laser Scanning ◽  
Measurement Techniques ◽  
Three Dimensional ◽  
Digital Terrain Model ◽  
Field Studies ◽  
Surface Zone ◽  
Three Dimensional Model ◽  
Geodetic Measurement ◽  
Near Surface ◽  
Gypsum Karst

In the region of Siesławice (near Busko-Zdrój, Poland) there are unique phenomena of gypsum karst. Atmospheric factors caused numerous gypsum outcrops, canals and underground voids. The article presents the possibility of using non-invasive gravimetric surveys supplemented with geodetic measurements to illustrate karst changes occurring around the void. The use of modern geodetic measurement techniques including terrestrial and airborne laser scanning enables to generate a digital terrain model and a three-dimensional model of voids. Gravimetric field studies allowed to map the anomalies of the gravitational field of the near-surface zone. Geodetic measurement results have made it possible to accurately determine the terrain correction that supplemented the gravimetric anomaly information. Geophysical interpretation indicate the presence of weathered rocks in the near surface zone and fractures and loosened zones located surround the karst cave.

scholarly journals Cell Bioprinting: The 3D-Bioplotter™ Case

Materials ◽  
2019 ◽  
Vol 12 (23) ◽  
pp. 4005 ◽  
Author(s):  
Angelats Lobo ◽  
Ginestra
Keyword(s):  
3D Structure ◽  
Three Dimensional ◽  
Petri Dish ◽  
Two Dimensions ◽  
Point Of View ◽  
Lack Of Information ◽  
Synthetic Materials ◽  
Different Types ◽  
Available Information ◽  
User Friendly

The classic cell culture involves the use of support in two dimensions, such as a well plate or a Petri dish, that allows the culture of different types of cells. However, this technique does not mimic the natural microenvironment where the cells are exposed to. To solve that, three-dimensional bioprinting techniques were implemented, which involves the use of biopolymers and/or synthetic materials and cells. Because of a lack of information between data sources, the objective of this review paper is, to sum up, all the available information on the topic of bioprinting and to help researchers with the problematics with 3D bioprinters, such as the 3D-Bioplotter™. The 3D-Bioplotter™ has been used in the pre-clinical field since 2000 and could allow the printing of more than one material at the same time, and therefore to increase the complexity of the 3D structure manufactured. It is also very precise with maximum flexibility and a user-friendly and stable software that allows the optimization of the bioprinting process on the technological point of view. Different applications have resulted from the research on this field, mainly focused on regenerative medicine, but the lack of information and/or the possible misunderstandings between papers makes the reproducibility of the tests difficult. Nowadays, the 3D Bioprinting is evolving into another technology called 4D Bioprinting, which promises to be the next step in the bioprinting field and might promote great applications in the future.

Stereoscopic Visualization in Endoscopic Surgery: Problems, Benefits, and Potentials

1997 ◽  
Vol 6 (2) ◽  
pp. 198-217 ◽  
Author(s):  
Cletus von Pichler ◽  
Klaus Radermacher ◽  
Wieland Boeckmann ◽  
Günter Rau ◽  
Gerhard Jakse
Keyword(s):  
Visual Perception ◽  
Endoscopic Surgery ◽  
New Technology ◽  
Field Studies ◽  
3D Video ◽  
Video Endoscopy ◽  
Starting Point ◽  
Video Systems ◽  
Visualization Systems ◽  
Stereoscopic Visualization

In recent years the application of 3D video endoscopic systems in clinical routine, especially in the field of endoscopic surgery, has increased steadily. The number of 3D video endoscopic systems used in the operating theatre today is obviously lower than the number of established traditional 2D video endoscopic systems. The hesitant application of the new technology can be mainly explained by the lack of evaluation of its influence on the surgical procedure and on patient benefit as well as by the need for specific economic analysis. The starting point for our investigations was to analyze the influence of 3D video endoscopy on endoscopically guided manipulations in general. In order to achieve quantitative statements we performed laboratory experiments using human factors analyzing methods. In the next step we performed clinical field studies of the application of 3D video endoscopic systems for a side-by-side comparison of 2D and 3D systems. These studies showed that the use of 3D video endoscopy has an improving influence on endoscopically guided surgical manipulations as well as on the intraoperative procedures. We also found that spatial visual perception of stereoscopic images of 3D video systems may cause problems for some users. For the validation of stereoscopic visualization systems we additionally studied the influence of isolated technical, optical, and physiological parameters on visual perception as well as on transposition into visually guided manipulations. Detailed results of these investigations concerning the influence of 3D video endoscopy on binocular perception are presented.

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