High Content Screening Plate Manager
Load, visualize, and process multi-channel fields from Thermo Scientific CellInsight CX5, CX7 LED, and CX7 LZR HCA instruments and HCS Studio software.
This Xtra contains a module to browse High Content Screening data provided as a folder containing DIB files (the native image format for the HCS Studio software).
The module recognizes the plates and fields present in the folder, and provides several options:
- Loading individual fields as multi-channel volumes.
- Loading and processing an individual field using a recipe.
- Loading and stitching all fields from one specific well as one whole multi-channel volume. NEW
- Processing all fields of a plate in batch using a recipe. All wells and fields are processed independently from each other.
The Xtra also provides additional modules for generating multichannel recipes (ChannelSelector module), and applying a recipe to a list of files (BatchApply_RecipePlayer module).
A small example dataset containing two fields is provided in the archive, as well as two simple recipes which will help you design your own.
To get started, set the AMIRA_LOCAL environment variable to the 'local' folder from the archive, open Amira, right-click in the Project View and create the 'HCS Plate Manager' module.
Type
Add-on
Class
Python (pyscro)
Tcl
Created with
Amira-Avizo 2020.2
Requirement
Windows Only
Amira XImagePAQ / Amira for Cell Biology
Product
Amira-Avizo
Industry
Life & Biomedical Sciences
Tags
Amira for Cell Biology, HCS
Help for installation
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