Surface Material Grid View New
Add-on

Surface Material Grid View

Tcl

18 Oct 2022 - This Xtra arranges all materials of a surface in a grid view.  Learn more

Create Material IDs
Add-on

Create Material IDs

Tcl

1 Jun 2022 - Using this module, the "Materials" parameter-bundle of a label-field is created and filled with an ID and name for each label-value.  Learn more

Scale Axes
Add-on

Scale Axes

Tcl

13 May 2022 - The coordinate-axes displayed using the "Axes" module cannot be scaled easily. Using this Xtra, you can easily change the lengths of the axes and the location of the displayed origin.  Learn more

High Content Screening Plate Manager
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 Customize Amira-Avizo with moduleExtender
Add-on How-to

How to Customize Amira-Avizo with moduleExtender

Tcl, Misc

25 Nov 2021 - Are there module settings you always need to change during your daily work? This Xtra describes how you can permanently change default settings of modules in Amira-Avizo.  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

Landmark based Data Alignment
Add-on How-to

Landmark based Data Alignment

Tcl, Demo

18 Nov 2021 - This module can be used to facilitate the alignment of datasets using pairs of landmarks. The video tutorial demonstrates this technique.  Learn more

Using Tcl Command Module for Multi-File OBJ Export
Add-on How-to

Using Tcl Command Module for Multi-File OBJ Export

Tcl, Project (hx, pgo)

7 Sep 2021 - The Tcl Command Module makes it easy to export the surfaces of single objects from a multi-object surface as OBJ (Wavefront) files.  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

Export Measures
Add-on

Export Measures

Tcl

17 Nov 2020 - This module creates a spreadsheet that contains the measurement and annotation data (generated with the Measurement tool) that can be used for further analysis.  Learn more

Auto Threshold for Multi-Thresholding
Add-on

Auto Threshold for Multi-Thresholding

Tcl

19 Oct 2020 - The combination of Auto Thresholding and Multi-Thresholding makes it easy to create precise surfaces without additional smoothing, using the Generate Surface's smoothing option "Existing Weights".  Learn more

Apply a Recipe on a Batch of Files
Add-on

Apply a Recipe on a Batch of Files

Recipe (hxrecipe), Tcl

25 Aug 2020 - Apply a recipe to a batch of files and save the results in an output directory.  Learn more

Selective Border Kill
Add-on

Selective Border Kill

Tcl

24 Aug 2020 - A module that allows you to filter particles selectively, based on their contact with each border of the image.  Learn more

Segment TEM data without artifact  and background effect
Add-on

Segment TEM data without artifact and background effect

Recipe (hxrecipe), Tcl, Project (hx, pgo)

10 Jul 2020 - Segment TEM data aided by the Structure enhancement filter.  Learn more

Copy Measure Annotation Settings
Add-on

Copy Measure Annotation Settings

Tcl

15 Apr 2020 - This Tcl script-object can be used to copy visualisation settings from one measure to all others in a Measurement module. It is also possible to save/load settings to/from a text file.  Learn more

Caption From Port
Add-on

Caption From Port

Tcl

15 Apr 2020 - Use this module to fill the text field of a Caption module with the value of a port of another module.  Learn more

Create Label Annotations
Add-on

Create Label Annotations

Tcl

13 Dec 2019 - This module creates label annotations from the result of a Label Analysis with the help of the Measurement tool.  Learn more

Auto-Crop script module
Add-on

Auto-Crop script module

Tcl

16 Oct 2019 - Automatically crop your volume data to reduce its size.  Learn more

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.  Learn more

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.  Learn more

AMIRA_LOCAL Setup Tutorial
How-to

AMIRA_LOCAL Setup Tutorial

Demo

5 Oct 2020 - This Xtra provides a brief video that explains how to set up an AMIRA_LOCAL path on Windows 10.  Learn more