13 May 2022

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.

FeatureImage

This Xtra proposes a module to browse High Content Screening data provided as a folder containing DIB Files, the native image format for HCS Studio Software.

The module recognizes the plates and fields present in the folder, and offers 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 proposes additional modules enabling the generation of multichannel recipes (ChannelSelector module), and applying a recipe to a list of files (BatchApply_RecipePlayer module).a

A small example datasets containing 2 fields is proposed in the archive, as well as 2 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.