De Novo Software has provided two ImageJ macros that will help you export your image analysis from ImageJ to FCS Express Image Cytometry. The macros can be downloaded from the De Novo Software website at www.denovosoftware.com/site/imageJ.shtml.

 

 

General Overview:

 

The macros provided by De Novo Software are used for the following:

 

 

•DNS Macro Example Macro:

o The DNSMacroExample.ijm macro will process your images and export your segmentation and single cell image analysis results in a way that FCS Express Image Cytometry can read. The macro will process images and generate:

 

1. Object by object numerical results

2. Mask images of the segmented objects

3. An *.ijout file that FCS Express Image Cytometry will load to examine the object by object data while relating results back to the original image

 

 

The macro can analyze images from many use case listed below (please see full details on use cases in the DNS Macro Example Overview)

 

• A set of single standalone images

• An image with multiple channels (ie. Red, Green, and Blue, or DAPI, CD4, and Protein X etc.)

• Images from multiple wells in multi well plate format (ie. 96 well plate)

• Images from multiple fields of view (ie. multiple fields of one well in a multi-well format or a tiled/montage image)

• Any combination of multiple channels, multiple wells, and multiple fields of view

 

 

• DNS Analysis Creator Macro:

oCreates an *.IJX analysis configuration file that ImageJ can use to order, group, and process images in the above mentioned sets. (please see full details on use cases in the DNS Analysis Creator Overview)

 

   When images belong to a grouping the user must generate an Analysis Configuration file with an .IJX extension. The Analysis Configuration file tells FCS Express how the different images are related to each other. For example, if two images represent channel 1 and channel 2 from a single field or if 96 separate images make up the contents of a 96 well plate based experiment. The DNSAnalysisCreator.ijm macro has been designed to assist the user in creating the Analysis Configuration file.

 

 

 

 

In the next section, we will give a general overview of the DNS Macro Example