Visualization of Three-dimensional Human Data Based on CT Image

Three-dimensional medical image visualization becomes an essential part for medical field, including computer aided diagnosis, surgery planning and simulation, artificial limb surgery, radiotherapy planning, and teaching etc. In this paper, marching cubes algorithm is adopted to reconstruct the 3-D images for the CT image sequence in DICOM format under theVC＋＋6.0 and the visual package VTK platform. The relatively simple interactive operations such as rotation and transfer can be realized on the platform. Moreover, the normal vector and interior point are calculated to form the virtual clipping plane, which is then used to incise the 3-D object. Information of the virtual slice can be obtained, in the mean while the virtual slice images are displayed on the screen. The technique can realize the real time interaction extraction of virtual slice on 3-D CT image. The cuboids structured can be zoomed, moved and eircumrotated by operating mouse to incise the 3-D reconstruction object. Real time interaction can be realized by clipping the reconstruction object. The coordinates can be acquired by the mouse clicking in the 3D space, to realize the point mouse pick-up as well angle and distance interactive measurement. We can get quantitative information about 3-D images through measurement.

VT3D:a visualization toolbox for 3D transcriptomic data

Data visualization empowers researchers to communicate their results that support scientific reasoning in an intuitive way.Three-dimension(3D)spatially resolved transcriptomic atlases constructed from multi-view and high-dimensional data have rapidly emerged as a powerful tool to unravel spatial gene expression patterns and cell type distribution in biological samples,revolutionizing the understanding of gene regulatory interactions and cell niches.However,limited accessible tools for data visualization impede the potential impact and application of this technology.Here we introduce VT3D,a visualization toolbox that allows users to explore 3D transcriptomic data,enabling gene expression projection to any 2D plane of interest,2D virtual slice creation and visualization,and interactive 3D data browsing with surface model plots.In addition,it can either work on personal devices in standalone mode or be hosted as a web-based server.We apply VT3D to multiple datasets produced by the most popular techniques,including both sequencing-based approaches(Stereo-seq,spatial transcriptomics,and Slide-seq)and imaging-based approaches(MERFISH and STARMap),and successfully build a 3D atlas database that allows interactive data browsing.We demonstrate that VT3D bridges the gap between researchers and spatially resolved transcriptomics,thus accelerating related studies such as embryogenesis and organogenesis processes.The source code of VT3D is available at https://github.com/BGI-Qingdao/VT3D,and the modeled atlas database is available at http://www.bgiocean.com/vt3d_example.