Screenshots for PyCon

[Stéfan van der Walt]

Hi folks,

I'm giving a talk on skimage at PyCon ZA tomorrow. I still have room for a few screenshots or for one demo. If anyone has a particularly nice example, please send it my way.

Thanks!
Stéfan

[Juan Nunez-Iglesias]

Hi Stefan,

I hope this isn't too late. I recently had to segment out the chromosomes in this picture:

You can see the illumination is really uneven, so `threshold_otsu` does really poorly. `threshold_adapt` works as advertised but you get some artifacts:

The key to getting around this was seeing the "grain" in the outside regions compared to the chromosomes themselves. So after a `binary_opening` with the right parameters (don't have them off the top of my head), followed by a `remove_small_objects`:

Hope that helps!

Juan.

PS: I also made this notebook to help Mehmet Kunt, a civil engineering professor Emmanuelle and I met at EuroSciPy, measure potholes in images.

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[Stéfan van der Walt]

On Thu, Oct 3, 2013 at 3:58 AM, Juan Nunez-Iglesias <jni....@gmail.com> wrote:
> I hope this isn't too late. I recently had to segment out the chromosomes in this picture:

Very nicely done, thank you!

Stéfan

[Payal Gupta]

[Payal Gupta]

hey juan,

i am using threshold_otsu for thresholding  but  i am not getting appropriate result. And how to use threshold_adapt?

i want to convert gray image to binary image.

how can i do?

anybody help in this problem.

thanks