Welcome to the Xtra Library for
Thermo Scientific Amira, Avizo and PerGeos Software

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.

Parameter optimization for auto-thresholding a data

Python (pyscro), Project (hx, pgo), Data

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

Python (pyscro)

This example shows how to use PyQt5 in a pyscro module.

Automated sizing of large area nanoparticles

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

The recipe segments large area Pt-Rh nanoparticles at high resolution (TEM image).

Particles identification in Nickel-Base Superalloy

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

FIB Serial Section of Particles in Nickel-Base Superalloy

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.

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.

Disp View

Python (pyscro)

This module allows the user to visualise a vector field, computed using the Digital Volume Correlation module, with arrows coloured according to the magnitude of the vector.

Convert To Volume

Python (pyscro)

This module allows the user to re-map a DVC scalar field (displacement and strain components) stored in a mesh into a lattice dataset (image).

Green-Lagrange Strain

Python (pyscro)

This module allows the user to compute the Green-Lagrange strain tensor from a displacement field.

Cumulate Displacement Field

Python (pyscro)

This module allows the user to add multiple displacement fields.

Scalar Extract

Python (pyscro)

This module extracts the displacement and strain components computed using the Digital Volume Correlation module.

DVC Accuracy

Python (pyscro)

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

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).

Average interleaved data

Python (pyscro), Project (hx, pgo)

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

Random Forests for Multiclass Segmentation using Python API in PerGeos

Python (pyscro), Project (hx, pgo), Data

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.