NeuroMorph: A Toolset for the Morphometric Analysis and Visualization of 3D Models Derived from Electron Microscopy Image Stacks
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Photometric stereo, a computer vision technique for estimating the 3D shape of objects through images captured under varying illumination conditions, has been a topic of research for nearly four decades. In its general formulation, photometric stereo is an ...
Reading out neuronal activity from three-dimensional (3D) functional imaging requires segmenting and tracking individual neurons. This is challenging in behaving animals if the brain moves and deforms. The traditional approach is to train a convolutional n ...
Large training datasets have played a vital role in the success of modern deep learning methods in computer vision. But, obtaining sufficient amount of training data is challenging, specially when annotating volumetric images. This is because fully annotat ...
Volume electron microscopy is the method of choice for the in situ interrogation of cellular ultrastructure at the nanometer scale, and with the increase in large raw image datasets generated, improving computational strategies for image segmentation and s ...
To obtain a more complete understanding of material microstructure at the nanoscale and to gain profound insights into their properties, there is a growing need for more efficient and precise methods that can streamline the process of 3D imaging using a tr ...
Modern histopathology workflows rely on the digitization of histology slides. The quality of the resulting digital representations, in the form of histology slide image mosaics, depends on various specific acquisition conditions and on the image processing ...
This study aimed to explore the value of synchrotron-based phase-contrast microcomputed tomography (micro-CT) in pulmonary vascular pathobiology. The microanatomy of the lung is complex with intricate branching patterns. Tissue sections are therefore diffi ...
CNN-based volumetric methods that label individual voxels now dominate the field of biomedical segmentation. However, 3D surface representations are often required for proper analysis. They can be obtained by post-processing the labeled volumes which typic ...
Efficient analysis of the three-dimensional (3D) shape and distribution of curvilinear crystal defects, namely dislocations, is an open research topic in material science and computer vision. In order to determine the structural and opto-electrical charact ...
This report presents the software tools that will be available online to help users accurately segment ultra-thin sections of brain tissue in a large image to determine the section’s coordinates. In order to predict these coordinates, the goal was to use a ...