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.

Refine Surface

Refine Surface

XPand module

Module for refining a surface.

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Recipe Sequencer

Recipe Sequencer

Recipe (hxrecipe), XPand module, Data

Module for sequencing a recipe on each individual isolated label from a label field.

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Plates in Ti-62222

Plates in Ti-62222

Recipe ISP (hxisp,a2d), Data

FIB Serial Section of Ti-62222

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PerGeos TCL script for processing all files in a folder with a recipe

PerGeos TCL script for processing all files in a folder with a recipe

Tcl

Process all files in a folder by applying the same recipe to all of them individually.

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Load a Numpy array into PerGeos/Amira-Avizo using the Python API

Load a Numpy array into PerGeos/Amira-Avizo using the Python API

Python (pyscro)

This script simply reads and loads numpy arrays in a user specified directory into PerGeos/Amira-Avizo as an image.

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Length Distribution Analysis

Length Distribution Analysis

Recipe (hxrecipe), Project (hx, pgo), Demo, Data

This tutorial demonstrated how to quantify thickness distribution along the length

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Incremental Global DVC

Incremental Global DVC

Python (pyscro)

Perform incremental DVC analysis for a series of deformed image, using either small strain or large strain approaches (note: to run correctly the Green Lagrange strain script needs to be installed).

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Export Spatial Graph to MS Excel XML document

Export Spatial Graph to MS Excel XML document

Recipe (hxrecipe), Tcl, Demo

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

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Eagleford Shale FIB-SEM Segmentation

Eagleford Shale FIB-SEM Segmentation

Recipe (hxrecipe)

This recipe guided workflow will result in a 5-phase segmentation applicable to the included dataset and most typical FIB-SEM data. Input Data, the Recipe, Output data are included here.

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

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

Project (hx, pgo), Demo

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

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Depthwise Volume Fraction

Depthwise Volume Fraction

Python (pyscro)

This module allows the user to compute the volume fraction per separated region depending on depth from the surface of a segmented object.

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DVC Accuracy

DVC Accuracy

Python (pyscro)

This module allows the user to measure the displacement and strain errors from two repeat scans.

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Create Label Annotations

Create Label Annotations

Tcl

This module creates label annotations from the result of a Label Analysis with the help of the Measurement tool.

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Cracks and cavities segmentation in CT data

Cracks and cavities segmentation in CT data

Recipe (hxrecipe), Data

This recipe is useful in segmenting data with cracks/pores and cavities.

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Convert To Spreadsheet

Convert To Spreadsheet

Python (pyscro)

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.

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Berea Pore Size Distribution Tutorial

Berea Pore Size Distribution Tutorial

Recipe (hxrecipe), Project (hx, pgo), Demo, Data

Create a semi-automatic workflow for Pore Size Distribution on Berea sandstone

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Average interleaved data

Average interleaved data

Python (pyscro), Project (hx, pgo)

The purpose of this python script object is to average interleaved data.

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Auto-Crop script module

Auto-Crop script module

Tcl

Automatically crop your volume data to reduce its size.

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Particles identification in Nickel-Base Superalloy

Particles identification in Nickel-Base Superalloy

Recipe ISP (hxisp,a2d), Python (pyscro), Data

FIB Serial Section of Particles in Nickel-Base Superalloy

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View Manager

View Manager

Tcl

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

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