Batch trace workflow

With Batch Trace, you can trace over multiple images using a single Neurolucida 360 configuration. Neurolucida 360 software generates an .ASC or .DAT data file for each image processed.

Access the workflow in the Main window, from Trace>Automatic>Batch Trace.

The images to be processed must be set to the same µm/px scale and X/Y, and to the same Z step (for 3D images).

Prepare for the batch run

1. In the 3D environment, open an image stack representative of the image stacks you'll process with the batch run.
2. Detect somas, trace with the automatic method, detect varicosities, spines and puncta as needed.
3. Click the Settings button to save the settings used in Step 2. They will be used for the batch run.
4. In the 3D Settings window, click Save current settings and enter a name for the configuration.
5. Close the 3D window. You don't need to save the data file.
6. In the Main window, go to the Trace ribbon and click Automatic>Batch trace to start the workflow.

 

Workflow steps

1. Choose configuration
2. Select image files
3. Specify image scaling
4. Define output settings
5. Trace all files
6. Finish