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.

Simulation-based Tortuosity estimation of porous media
Add-on

Simulation-based Tortuosity estimation of porous media

Tcl

16 Oct 2019 - Tortuosity is a key factor for material characterization of porous media. This package propose 4 methods to calculate the tortuosity factor based on the xlab properties: Absolute Permeability, Molecular Diffusion, Formation Factor and Thermal Conductivity.

Different methods to measure the volume of fibers generated by XFiber extension
Add-on How-to

Different methods to measure the volume of fibers generated by XFiber extension

Project (hx, pgo), Demo

16 Oct 2019 - This guideline aims to identify different ways to analyze the volume fraction of fibers traced by the XFiber extension.

Relative pore fraction
Add-on How-to

Relative pore fraction

Recipe (hxrecipe), Demo, Data

16 Oct 2019 - The calculation of a relative pore fraction for each separated grains.

Export Spatial Graph to MS Excel XML document
Add-on How-to

Export Spatial Graph to MS Excel XML document

Recipe (hxrecipe), Tcl, Demo

16 Oct 2019 - An Amira-Avizo recipe to export to a XML document which can be used in MS Excel for further analysis.

Refine Surface
Add-on

Refine Surface

XPand module

16 Oct 2019 - Module for refining a surface.

View Manager
Add-on

View Manager

Tcl

14 Oct 2019 - This module allows storing and retrieving camera settings for viewer windows to be able to switch easily between different view presets.

Recipe Sequencer
Add-on

Recipe Sequencer

Recipe (hxrecipe), XPand module, Data

14 Oct 2019 - Module for sequencing a recipe on each individual isolated label from a label field.

Tutorial: Generate a DVC mesh of complex shapes
Add-on How-to

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
Add-on

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 PyQt5 in a pyscro module
Add-on

How to use PyQt5 in a pyscro module

Python (pyscro)

7 Oct 2019 - This example shows how to use PyQt5 in a pyscro module.

Convert To Spreadsheet
Add-on

Convert To Spreadsheet

Python (pyscro)

3 Oct 2019 - This module allows the user to convert a scalar/vector/tensor field into a spreadsheet containing the X,Y,Z positions and the values of the field.

How to use deep learning models in AmiraAvizo2D Analyzer
Add-on

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)

Plates in Ti-62222
Add-on

Plates in Ti-62222

Recipe ISP (hxisp,a2d), Data

24 Jul 2019 - FIB Serial Section of Ti-62222

Getting Started with Deep Learning Training for Image Segmentation
Add-on

Getting Started with Deep Learning Training for Image Segmentation

Deep learning model, Project (hx, pgo), Data

27 Jun 2019 - Model and companion project for the Deep Learning tutorial.

Porosity in a Battery Separator
Add-on

Porosity in a Battery Separator

Recipe ISP (hxisp,a2d), Data

26 Jun 2019 - The recipe classifies the pores in a battery separator (SEM image).

Porosity in a Polymer Divider
Add-on

Porosity in a Polymer Divider

Recipe ISP (hxisp,a2d), Demo, Data

26 Jun 2019 - The recipe detects pores in a polymer divider (SEM image).

Au-Ni-Cl Nanoparticles
Add-on

Au-Ni-Cl Nanoparticles

Recipe ISP (hxisp,a2d)

25 Jun 2019 - This recipe segments nanoparticles of different element from an EDS map.

BSE SEM denoiser
Add-on

BSE SEM denoiser

Deep learning model

21 Jun 2019 - U-Net model for denoising back-scattered SEM images.

Polymer Beads
Add-on

Polymer Beads

Recipe ISP (hxisp,a2d)

6 Jun 2019 - Segmentation of the particles located in the foreground of the SEM image.