Auto Threshold for Multi-Thresholding
Tcl
19 Oct 2020 - The combination of Auto Thresholding and Multi-Thresholding makes it easy to create precise surfaces without additional smoothing, using the Generate Surface's smoothing option "Existing Weights". Learn more
![Volume Projection](/software-em-3d-vis/xtra-library/uploads/2020/09/snapshotVolumeProjection-md.png)
Python (pyscro)
19 Oct 2020 - This Xtra creates a volume projection along any orthogonal axis using arithmetic operations. Learn more
![Relative Area Fraction for Amira-Avizo2D](/software-em-3d-vis/xtra-library/uploads/2020/10/HowTo_RelativeAreaFraction-md.jpg)
Relative Area Fraction for Amira-Avizo2D
Recipe ISP, IVP, A2D, Python (pyscro), Data, Misc
5 Oct 2020 - This Xtra provides a module to help compute the area fraction of a label over the area of another label in Amira-Avizo2D. Learn more
![AMIRA_LOCAL Setup Tutorial](/software-em-3d-vis/xtra-library/uploads/2020/09/Clipboard02-md.jpg)
Demo
5 Oct 2020 - This Xtra provides a brief video that explains how to set up an AMIRA_LOCAL path on Windows 10. Learn more
![Explode Surface Animation Script](/software-em-3d-vis/xtra-library/uploads/2020/07/ExplodeSurface2-md.png)
Explode Surface Animation Script
Tcl
5 Oct 2020 - A script that will animate the expansion of pieces of a surface. Contains the script, documentation, an example surface, and a video of the finished result. Learn more
![Apply a Recipe on a Batch of Files](/software-em-3d-vis/xtra-library/uploads/2022/03/3-8-2022 10-39-58 AM-md.jpg)
Apply a Recipe on a Batch of Files
Recipe (hxrecipe), Tcl
25 Aug 2020 - Apply a recipe to a batch of files and save the results in an output directory. Learn more
![Selective Border Kill](/software-em-3d-vis/xtra-library/uploads/2020/07/snapshot_selectiveborderkill-md.jpg)
Tcl
24 Aug 2020 - A module that allows you to filter particles selectively, based on their contact with each border of the image. Learn more
![Segmentation of agglomerated Ni nanoparticles](/software-em-3d-vis/xtra-library/uploads/2019/10/size-distribution-Ni-md.jpg)
Segmentation of agglomerated Ni nanoparticles
Recipe ISP, IVP, A2D
24 Aug 2020 - This recipe segments overlapping Ni nanoparticles on a high resolution STEM image. A size distribution of the nanoparticles can also be computed. Learn more
![Hough Circle Fitting](/software-em-3d-vis/xtra-library/uploads/2023/03/hough circle fitting xtra-md.png)
Python (pyscro)
30 Jul 2020 - This module uses a Generalized Hough-transform to detect circles in an image. Learn more
![Multi-Scale Cylinder Correlation](/software-em-3d-vis/xtra-library/uploads/2020/04/MultiScaleCylinderCorrelation-md.png)
Multi-Scale Cylinder Correlation
Python (pyscro), Project (hx, pgo)
30 Jul 2020 - This module gives better results for fiber-tracing in the case of multiple fibers with differing or varying diameters in the same dataset. Learn more
![Create a Porosity Analysis Recipe](/software-em-3d-vis/xtra-library/uploads/2020/07/15-07-2020 10-18-04-md.jpg)
Create a Porosity Analysis Recipe
Recipe (hxrecipe), Demo
15 Jul 2020 - This tutorial explains how to create a simple porosity analysis and turn it into a push-button recipe. Learn more
![Cylinder Slice with Native Resolution in Z](/software-em-3d-vis/xtra-library/uploads/2022/02/2-25-2022 3-08-16 PM-md.jpg)
Cylinder Slice with Native Resolution in Z
XPand module
10 Jul 2020 - This Xtra module is a version of the Cylinder Slice module that sets the resolution, in the Z direction, of the extracted image to the native resolution of the input data. Learn more
![Optical Thin Section Pore Space Characterization in HSV colorspace](/software-em-3d-vis/xtra-library/uploads/2020/02/Xtra-image_HSV_threshold-md.jpg)
Optical Thin Section Pore Space Characterization in HSV colorspace
Python (pyscro), Project (hx, pgo), Data
10 Jul 2020 - Optical Thin Section Pore Space is segmented converting RGBA images in HSV colorspace by means of Python scripts. Learn more
![Segment TEM data without artifact and background effect](/software-em-3d-vis/xtra-library/uploads/2020/07/Xtra_TEM-md.png)
Segment TEM data without artifact and background effect
Recipe (hxrecipe), Tcl, Project (hx, pgo)
10 Jul 2020 - Segment TEM data aided by the Structure enhancement filter. Learn more
![Segmentation of Pathological Osteocytes in an Undecalcified Piece of Mouse Bone using Amira-Avizo2D](/software-em-3d-vis/xtra-library/uploads/2020/07/ImageOsteocytes-md.png)
Segmentation of Pathological Osteocytes in an Undecalcified Piece of Mouse Bone using Amira-Avizo2D
Recipe ISP, IVP, A2D
3 Jul 2020 - This is a workflow to segment out osteocytes in mouse bone sample using Amira-Avizo2D. Learn more
![Porosity and Permeability by blocks](/software-em-3d-vis/xtra-library/uploads/2020/02/Perm-md.png)
Porosity and Permeability by blocks
Tcl
3 Jul 2020 - Splits a binary pore space into blocks and output one porosity and permeability value for every block Learn more
![Extracting and Visualizing Local Statistics from Fibrous Materials](/software-em-3d-vis/xtra-library/uploads/2020/04/snapshot-md.jpg)
Extracting and Visualizing Local Statistics from Fibrous Materials
Project (hx, pgo)
3 Jul 2020 - This XTRA entry discusses the application of the “Spatial Graph Local Statistics” to extract statistical information from traced fibers in a fibrous material. The sample is 50% glass fiber-reinforced polymer (GFRP), courtesy of EMS Grivory. Learn more
![Interactive Top-Hat by Reconstruction](/software-em-3d-vis/xtra-library/uploads/2022/05/imageITH-2-md.jpg)
Interactive Top-Hat by Reconstruction
XPand module
3 Jul 2020 - This module provides an interactive Top-Hat segmentation that prevents the segmentation of "false positive" porosity on the edges. Learn more
![XFiber Automation](/software-em-3d-vis/xtra-library/uploads/2020/02/FrontPageImage-md.png)
Tcl, Project (hx, pgo), Data
17 Jun 2020 - To make use of XFiber, the user usually needs to input many parameters. This package provides 2 tools to ease Xfiber process by presetting Cylinder Correlation and Auto Trace Correlation modules values. Learn more
![Avizo User's Guide translated to Japanese](/software-em-3d-vis/xtra-library/uploads/2021/02/Xtra-2-small-md.jpg)
Avizo User's Guide translated to Japanese
Demo, Misc
11 May 2020 - You will find here a selection of Avizo tutorials translated to Japanese. Learn more
![Molar Segmentation Using Watershed, Top-Hat, and Surface Generation](/software-em-3d-vis/xtra-library/uploads/2020/05/Snapshot_Example_2viewers-md.png)
Molar Segmentation Using Watershed, Top-Hat, and Surface Generation
Project (hx, pgo), Demo, Data
11 May 2020 - Data, tutorial, and complete project for segmenting a CT-scanned human molar artifact. The tutorial and project cover advanced image segmentation and surface generation. Learn more