Re: Equivalent of watershed for cutting connected components of an image of particles?
I second the post of Juan regarding the watershed for non sparse data. As for clearing image borders you have a function from the segmentation module here : http://scikit-image.org/docs/dev/api/skimage.segmentation.html#clear-border On Thursday, 19 February 2015 01:04:10 UTC+1, Adam Hughes wrote:
Hi,
In ImageJ, one can select watershedding to break up connected regions of particles. Are there any examples of using watershed in this capacity in scikit image? All of the examples I see seem to use watershedding to do segmentation, not to break connected particles in an already-segmented black and white image.
Also, is there a straightforward way to remove particles on a the edge of an image? Sorry, googling is failing me, but I know this is possible.
Thanks
Ha! I'd never noticed that function! Thanks for pointing it out, Georges! =) On Thu, Feb 19, 2015 at 7:31 PM, Georges H <georgeshattab@gmail.com> wrote:
I second the post of Juan regarding the watershed for non sparse data. As for clearing image borders you have a function from the segmentation module here : http://scikit-image.org/docs/dev/api/skimage.segmentation.html#clear-border On Thursday, 19 February 2015 01:04:10 UTC+1, Adam Hughes wrote:
Hi,
In ImageJ, one can select watershedding to break up connected regions of particles. Are there any examples of using watershed in this capacity in scikit image? All of the examples I see seem to use watershedding to do segmentation, not to break connected particles in an already-segmented black and white image.
Also, is there a straightforward way to remove particles on a the edge of an image? Sorry, googling is failing me, but I know this is possible.
Thanks
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Sure thing ! i am actually using it in my own registration workflow ;)) Follow up on the watershed segmentation, maybe you could upload an example image so we could make some suggestions ? On Thursday, 19 February 2015 11:12:26 UTC+1, Juan Nunez-Iglesias wrote:
Ha! I'd never noticed that function! Thanks for pointing it out, Georges! =)
On Thu, Feb 19, 2015 at 7:31 PM, Georges H <george...@gmail.com <javascript:>> wrote:
I second the post of Juan regarding the watershed for non sparse data.
As for clearing image borders you have a function from the segmentation module here :
http://scikit-image.org/docs/dev/api/skimage.segmentation.html#clear-border
On Thursday, 19 February 2015 01:04:10 UTC+1, Adam Hughes wrote:
Hi,
In ImageJ, one can select watershedding to break up connected regions of particles. Are there any examples of using watershed in this capacity in scikit image? All of the examples I see seem to use watershedding to do segmentation, not to break connected particles in an already-segmented black and white image.
Also, is there a straightforward way to remove particles on a the edge of an image? Sorry, googling is failing me, but I know this is possible.
Thanks
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participants (2)
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Georges H -
Juan Nunez-Iglesias