How to generate a markup file from ImageJ

Bayesian analysis of blinking and bleaching

How to generate a markup file from ImageJ

Postby cedric » Mon Dec 08, 2014 10:00 am

Hey there,
i have just started to run 3B yesterday and i 2 questions about the markup file:

- What is the role of this markup file?
- Could anyone know how to generate a markup file with image J?

Thanks
cedric
 
Posts: 1
Joined: Wed Dec 03, 2014 9:22 am

Re: How to generate a markup file from image J

Postby edrosten » Sat Dec 13, 2014 5:53 pm

cedric wrote:Hey there,
- What is the role of this markup file?


3B is compuationally expensive, so it's necessary to run it on a limited area. The markup indicaes which area you want the analysis performed on.


- Could anyone know how to generate a markup file with image J?



For the plugin, you just need to select an area with the selection tools. The ellipse tool is a good one.

To convert the selection to a markup file, do:

Edit > Selection > Create Mask
Edit > Invert

Then the area you want should be in white and the rest in black. Save the resulting image and use it as markup.
edrosten
 
Posts: 42
Joined: Wed Jul 18, 2012 2:54 pm


Return to 3B

Who is online

Users browsing this forum: No registered users and 1 guest

cron