High Content Screening Plate Manager New
Add-on

High Content Screening Plate Manager

Python (pyscro), Tcl

13 May 2022 - Load, visualize, and process multi-channel fields from Thermo Scientific CellInsight CX5, CX7 LED, and CX7 LZR HCA instruments and HCS Studio software.  Learn more

How to Segment Cavities Using the Compute Ambient Occlusion Module New
How-to

How to Segment Cavities Using the Compute Ambient Occlusion Module

Demo

12 Apr 2022 - This tutorial demonstrates how to segment pores or cavities using the Compute Ambient Occlusion module.  Learn more

How to Perform Trabecular and Cortical Bone Segmentation New
How-to

How to Perform Trabecular and Cortical Bone Segmentation

Demo

12 Apr 2022 - This tutorial demonstrates how to use the Compute Ambient Occlusion module to perform the segmentation of trabecular and cortical bone, as well as of the pore space, and then how to use the Arithmetic module to aggregate those results in one label field.  Learn more

How to Use the Surface View Module and Create Elaborate Surface Renderings
How-to

How to Use the Surface View Module and Create Elaborate Surface Renderings

Demo

30 Dec 2021 - This short video demonstrates the basic use of the Surface View module, and how to combine several Surface View modules to create elaborate renderings.  Learn more

Masking Map by Molecule
Add-on

Masking Map by Molecule

Tcl

18 Nov 2021 - Module Mask Map By Molecule lets you mask an EM map of a macro molecule by an atomic model of the entire or partial molecule. This can be useful when validating EM maps from SPA with published models from the Protein Data Bank.  Learn more

How to Set the Colormap for Ortho Slice and Volume Rendering
How-to

How to Set the Colormap for Ortho Slice and Volume Rendering

Demo

18 Nov 2021 - This tutorial is an introduction to the basic principle and use of colormaps.  Learn more

How to Use the Image Stack Processing (ISP) Workroom
How-to

How to Use the Image Stack Processing (ISP) Workroom

Demo

14 Sep 2021 - This tutorial demonstrates how to use the ISP workroom, an intuitive 2D workroom for automating image processing workflows in 3D.  Learn more

How to Overlay Images Using the Color Wash Module
How-to

How to Overlay Images Using the Color Wash Module

Demo

14 Sep 2021 - This short video demonstrates how to use the Color Wash module to overlay label colors onto a greyscale image.  Learn more

How to Register and Merge Images
How-to

How to Register and Merge Images

Demo

14 Sep 2021 - This short tutorial demonstrates how to use the Register Images and Merge modules to align and merge two images.  Learn more

How to Use the Transform Editor
How-to

How to Use the Transform Editor

Demo

14 Sep 2021 - This tutorial introduces the concept of geometric transformation in Amira-Avizo and demonstrates data alignment with the Transform Editor.  Learn more

How to Create a Custom Label Colormap
How-to

How to Create a Custom Label Colormap

Demo

14 Sep 2021 - This short video explains how to create and export a label colormap from the Segmentation Editor.  Learn more

How to Change the Label Colormap to Display a Label Field
How-to

How to Change the Label Colormap to Display a Label Field

Demo

14 Sep 2021 - This short video explains how to set an appropriate colormap for label fields with a large number of labels.  Learn more

How to Edit a Colormap from the Colormap Editor
How-to

How to Edit a Colormap from the Colormap Editor

Demo

14 Sep 2021 - This tutorial demonstrates how to use the Colormap Editor.  Learn more

How to Save a Project
How-to

How to Save a Project

Demo

14 Sep 2021 - This short tutorial presents the different options to save a project.  Learn more

Extract Oriented Labels
Add-on How-to

Extract Oriented Labels

Python (pyscro), Project (hx, pgo)

29 Mar 2021 - The Extract Oriented Labels module extracts every label from the input label image, and resamples each image along its own main orientations (or eigenvectors).  Learn more

Fitting Molecule To Map
Add-on

Fitting Molecule To Map

Tcl

8 Mar 2021 - This Xtra contains a script module to fit molecular models to density maps, a process frequently called "docking".  Learn more

Image Segmentation Evaluation Using Standard Metrics (Python)
Add-on

Image Segmentation Evaluation Using Standard Metrics (Python)

Python (pyscro), Project (hx, pgo)

8 Mar 2021 - Segmentation evaluation using standard precision, and recall metrics for comparing two segmentation labels.  Learn more

Component Verification Using X-ray Computed Tomography and CAD Comparison
How-to

Component Verification Using X-ray Computed Tomography and CAD Comparison

Demo, Data, Misc

3 Mar 2021 - The following video and training material uses 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.  Learn more

Large Data Visualization
Add-on How-to

Large Data Visualization

Demo, Misc

24 Feb 2021 - This video tutorial demonstrates how to deal with visualization of large datasets.  Learn more

How to Set Up Two-Sided Clipping
How-to

How to Set Up Two-Sided Clipping

Demo

15 Feb 2021 - This tutorial explains how to set up two-sided clipping in order to transition between two visualizations of data.  Learn more

How to Use Camera Orbit and Animate a Rotation
How-to

How to Use Camera Orbit and Animate a Rotation

Demo

15 Feb 2021 - This tutorial explains how to use the Camera Orbit module, and then animate the rotation around an object in the Animation Director.  Learn more