bonej.org
bonej.org :: BoneJBoneJ is an ImageJ plugin for bone image analysis
http://www.bonej.org/
BoneJ is an ImageJ plugin for bone image analysis
http://www.bonej.org/
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bonej.org :: BoneJ | bonej.org Reviews
https://bonej.org
BoneJ is an ImageJ plugin for bone image analysis
bonej.org
bonej.org :: User Guide - Fit Sphere
http://bonej.org/sphere
ROI Manager populated with at least 5 point ROI's. Copy Sphere: Create a new stack containing image data from within the best-fit sphere. Padding: Number of black pixels to put between the sphere and the sides of the image. Inner Cube: Create a new stack containing image data from the cube that just fits inside the best-fit sphere. Outer Cube: Create a new stack containing image data from the cube that the best-fit sphere just fits inside. Image: image file name. Radius: length of radius.
bonej.org :: User Guide - Isosurface
http://bonej.org/isosurface
Calculate the surface area of a structure. Isosurface constructs a triangular surface mesh by marching cubes and calculates the bone surface area (BS) as the sum of the areas of the triangles making up the mesh. The surface mesh can optionally be displayed in a 3D Viewer window. Binary or 8-bit stack. Threshold: pixel value to use as a surface cutoff. Show surface: if checked, draw the mesh in a 3D Viewer window. BS: bone surface area. Interactive 3D surface mesh (optional).
bonej.org :: User Guide - Optimise Threshold
http://bonej.org/threshold
Is always called, and erosion and dilation are applied as part of a sequence: purify, erode, purify, dilate. 8-bit or 16-bit stack. Threshold Only: Determine the threshold from the stack histogram only. Apply Threshold: Replace the input image with a thresholded version. Show Plot: Display a graph showing connectivity versus threshold. Tests: Number of different thresholds to test for connectivity. Range: Proportion of the initial threshold to test above and below initial thresholds.
bonej.org :: User Guide - Fractal Dimension
http://bonej.org/fractal
This plugin estimates the fractal dimension of a binary image by applying the box-counting algorithm. Boxes of diminishing size are scanned over the image and the number of boxes of each size containing foreground (bone) is counted. As the box size decreases, the proportion of boxes containing foreground increases in a fractal structure. The biological value of measuring the fractal dimension of trabecular bone is somewhat obscure. Plot showing log(box count) versus -log(box size).
bonej.org :: User Guide - Structure Model Index
http://bonej.org/smi
The structure model index (SMI) is a method intended for determining the plate- or rod-like geometry of trabecular structures. It uses the change in surface area (BS, from Isosurface. As volume increases infinitesimally to calculate SMI = 0 for plates, 3 for rods and 4 for solid spheres. Unfortunately SMI is negative in the case of concave surfaces, which are common in trabecular bone, so SMI is of no use to quantify real bone structures. 15-23 doi: 10.1080/01495739708936692. SkyScan: Voxel dilation, for...
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Shefelbine Lab
http://www.shefelbine.org/index.php/site
Multiscale Mechanics of Bone. Exploring the mechanoadaptive response in bone through clinical data, experimental models, and computational simulation. . Related Projects. Mechanical factors in disease and healing. Understanding the role of mechanical factors in skeletal pathology. . Related Projects. Multiscale mechanics of bone. Understanding the unique properties of bone, particularly strength and toughness throughout the structural hierarchy. . Related Projects. Looking for software we have developed?
GitHub - mdoube/BoneJ: A collection of plugins for bone image analysis in ImageJ
https://github.com/mdoube/BoneJ
A collection of plugins for bone image analysis in ImageJ. Use Git or checkout with SVN using the web URL. Cannot retrieve the latest commit at this time. Failed to load latest commit information. BoneJ 1.x.x BoneJ is a collection of plugins for bone image analysis in the free image analysis program ImageJ. It implements a number of common morphological algorithms, most of which run in 3D. Full documentation for BoneJ can be found at http:/ bonej.org/. You can't perform that action at this time.
In focus: Launching our new CrocBase project! – Anatomy To You
https://anatomytoyou.com/2016/06/17/in-focus-launching-our-new-crocbase-project
Celebrating the structure of organisms. About Anatomy To You. In focus: Launching our new CrocBase project! Posted by Anatomy to You. June 17, 2016. December 15, 2016. We are delighted to announce the launch of the first of several new open access databases from John Hutchinson’s team at the RVC. Containing complete CT and MRI scans of almost all our modern crocodile specimens! From CrocBase scan RVC-JRH-FDC3. And the Open Science Framework. With CrocBase, we’re not just opening up our 3D model dat...
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bonej.org :: BoneJ
BoneJ is a plugin for bone image analysis in ImageJ. It provides free, open source tools for trabecular geometry and whole bone shape analysis. BoneJ has secured funding from the Wellcome Trust. For its next phase of development. Please tell us what you want to see with the BoneJ community survey. Development on BoneJ started for a number of practical and ethical reasons:. Our images are big (several gigabytes). Other software crashed when we tried to load more than 600MB. Doube M, Kłosowski MM, Arg...
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