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- #JAVA 3D IMAGE VIEWER FULL#
- #JAVA 3D IMAGE VIEWER SOFTWARE#
- #JAVA 3D IMAGE VIEWER CODE#
- #JAVA 3D IMAGE VIEWER SERIES#
#JAVA 3D IMAGE VIEWER CODE#
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portability to all major architectures – Unix/X11, Microsoft Windows and Macintosh,.
#JAVA 3D IMAGE VIEWER SOFTWARE#
The software design has been developed to meet a number of code requirements: In the first instance the data is formatted as a Woolz image structure, tools are available for data conversion and future versions will include this as standard. This application is directed to the use of the EADHB and EMAP atlases and for browsing 3D grey-level data. In this short note we describe the structure of the software and the functionality of the interface. In addition each section will display the intersection with all other sections currently being viewed.
#JAVA 3D IMAGE VIEWER FULL#
Each section view is independent and feedback is provided by displaying the position of the section within the 3D volume either as a simple polygon indicating the plane of section or as a full grey-level image, displayed appropriately in 3D. The basic structure of the JAtlasView is therefore a combination of a 3D feedback window with a number of section views.
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This orientation and structural visualisation problem is solved by using 3D visualisation of the underlying tissue coupled with interactive feedback of the section location within the volume. In addition if used in conjunction with atlas information in which the histology images are segmented in terms of the recognisable tissues, the building of a 3D view of the tissue/anatomical components is very difficult, particularly when learning the anatomy.
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The benefit of digital models is that the sectioning plane, orientation and position, can be selected arbitrarily to suit the required usage and the volume can be scanned interactively.įor the expert viewer, digital re-sectioning is sufficient for data-analysis but for others, panning through the volume at non-standard angles leads to disorientation. These are 2D images generated by digitally cutting throught the volume and mimic the traditional mechanism of physical microtome sectioning for revealing detailed structure. In many fields the most useful and regularly used visualisation of the grey-level or colour voxel image is to view sections. 3D images are regularly captured as part of biomedical research. The Java interface elements and the image processing library can be downloaded from the EADHB and EMAP web-sites.
#JAVA 3D IMAGE VIEWER SERIES#
The Java Atlas-Viewer (JAtlasView) interface has been developed as a series of modules that can be readily re-used within other applications to build more complex interfaces. The purpose of this work is to combine the machine-architecture independence of Java, with a highly portable, freely available fast and efficient C-coded image processing library tuned to the requirements of the atlas browsing and data analysis task. ImageJ) can be slow when processing large 3D volume images and have not been developed with the 3D atlas browsing application in mind. Systems based purely on an architecture neutral language such as Java (e.g. AVS/Express, VolRen, Amira, Analyse) or free but tied to a specific architecture. There are a number of tools available for browsing such data, but they are either commercial with a significant cost for the user (e.g. In addition such data is being stored in databases that can be accessed freely (EADHB, EMAP, BIOIMAGE, and MRIMA) and many more such atlases and bioinformatics resources will become available. Techniques for direct capture of 3D data are widespread and new techniques are becoming available, to complement existing sectioning methods, confocal and micro-CT/MRI. Three-dimensional (3D) images are now commonplace in biomedical research.