Per discussion with Matt:

Yes,

But I thought if I took the "background" as my "enclosed space" it would eliminate the label islands.

Either way your thoughts are correct. I want to remove the "little islands" and save the big islands.

I will try your approach and any additions to build this into the workflow easily would really be appreciated.

MJ

Matthew Jolley, MD
Pediatric Cardiology Fellow
Pager 5341

From: Steve Pieper [pieper@ibility.net]
Sent: Tuesday, May 15, 2012 2:35 PM
To: Jolley, Matthew
Subject: Re:

I think I see - yes, that's a little different. The 'remove islands' expects that you have one big segmentation region (say, the liver) that is fully enclosed but has little specks inside. These inside specs are considered the 'islands'.

I think what you want here is the 'identify islands' with a min size that will remove all the specks smaller than a given size but leave the others alone. If you do this, then each larger island will be given a unique number (color) with 1 being the largest island and so on. From that that you then need to re-merge into a single value, perhaps using ChangeLabel or by putting the label map in the background and thresholding everything greater than 1 into the same label value.

I can see though that it would be good to have two modes in the RemoveIsland effect so that you could do this in one step. Let me know if this sounds right and I can think about how it would work to streamline the interface...

-Steve

On Mon, May 14, 2012 at 8:41 PM, Jolley, Matthew <Matthew.Jolley@cardio.chboston.org<mailto:Matthew.Jolley@cardio.chboston.org>> wrote:
Here is the label map.

I would like a tool to remove all the small little islands less than X pixels...

Maybe I am using it wrong.

The