Welcome to the Xtra Library for
Thermo Scientific Amira, Avizo and PerGeos Software
Below you will find a collection of add-ons (recipes, scripts, demos,…) that will help you improve your day-to-day use of Amira-Avizo and PerGeos Software and make you gain both time and efficiency.
Use the Search field to look for specific keywords related to your domain of interest. The different filters also help you target specific resources.
Component Verification Using X-ray Computed Tomography and CAD Comparison
Demo, Data, Misc
3 Mar 2021 - The following video and training material will use an additively manufactured con rod to demonstrate how the surface profile generated from X-ray CT data can be compared to the original component CAD design.
Multi-Component Analysis of X-ray Computed Tomography Datasets
Recipe (hxrecipe), Project (hx, pgo), Demo, Data, Misc
4 Jan 2021 - The following videos and training material detail the steps taken to automate the analysis of multiple parts in a single X-ray CT volume.
Analysis of X-ray CT Calibration Spheres Using the Metrology Workroom
Demo, Data, Misc
4 Jan 2021 - This video presents how to use the Metrology workroom to analyze calibration spheres used in X-ray Computed Tomography.
Python (pyscro), Data
4 Jan 2021 - This module performs an adaptive global thresholding of the input image by computing a deviation from the mean of its grayscale values.
Relative Area Fraction for Amira-Avizo2D
Recipe ISP (hxisp,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.
Recipe (hxrecipe), Project (hx, pgo), Demo, Data
24 Aug 2020 - A 2D cell tracking example from a multichannel time series data set. Contains a segmentation recipe, modules needed to track the cells through time, and a video of the finished result.
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 via Python scripts.
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.
Molar Segmentation Using Watershed and 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.
2D SEM (White) Grain Segmentation
Recipe (hxrecipe), Data
21 Oct 2019 - This recipe segments and calculate the physical attributes of the white grains in the 2D SEM image
Random Forests for Multiclass Segmentation using Python API in PerGeos
Python (pyscro), Project (hx, pgo), Data
21 Oct 2019 - Simple demonstration of feature computation where the feature vector contains intensity and 2D eigenvalues (X & Y). This example uses random forests implementation from the sklearn package.
Recipe (hxrecipe), Project (hx, pgo), Demo, Data
21 Oct 2019 - This tutorial demonstrated how to quantify thickness distribution along the length
Porosity Clustering Analysis and Distance to Surface
Recipe (hxrecipe), Project (hx, pgo), Demo, Data
21 Oct 2019 - This tutorial demonstrates the steps to quantify porosity distribution and the distance to surface analysis.
Cracks and cavities segmentation in CT data
Recipe (hxrecipe), Data
21 Oct 2019 - This recipe is useful in segmenting data with cracks/pores and cavities.
Recipe (hxrecipe), Demo, Data
16 Oct 2019 - The calculation of a relative pore fraction for each separated grains.
Recipe (hxrecipe), XPand module, Data
14 Oct 2019 - Module for sequencing a recipe on each individual isolated label from a label field.
Berea Pore Size Distribution Tutorial
Recipe (hxrecipe), Project (hx, pgo), Demo, Data
11 Oct 2019 - Create a semi-automatic workflow for Pore Size Distribution on Berea sandstone
Tutorial: Generate a DVC mesh of complex shapes
Demo, Data
10 Oct 2019 - This tutorial describes how to build a DVC mesh for specimens with complex shapes.
Parameter optimization for auto-thresholding a data
Python (pyscro), Project (hx, pgo), Data
7 Oct 2019 - In this pyscro example we use opencv and matplotlib to automatically calculate an optimized parameter for thresholding the data based on various metrics.
How to use deep learning models in AmiraAvizo2D Analyzer
Recipe ISP (hxisp,a2d), Deep learning model, Data
3 Oct 2019 - Examples showing how to use AI (deep learning models) in an Analyzer recipe (hxisp)
Recipe ISP (hxisp,a2d), Data
18 Sep 2019 - Batch processing of a subset of porous silicon SEM images.