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median filter activity 1 for python #584

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tischi opened this issue Jun 13, 2023 · 6 comments · May be fixed by #585
Open

median filter activity 1 for python #584

tischi opened this issue Jun 13, 2023 · 6 comments · May be fixed by #585
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enhancement New feature or request

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@tischi
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tischi commented Jun 13, 2023

https://neubias.github.io/training-resources/median_filter/index.html#2d

I feel doing the activity on the binary image may be a bit too technical.

I feel using one of the gray scale example images with a bit of noise might be more accessible for beginners as it may be easier to related the image to some biological sample.

But I am not sure.

@tibuch @manerotoni what do you think?
@tischi
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tischi commented Jun 13, 2023

In other words, maybe the activity 1 example should have a bit of biology in it.

The binary image could be an advanced activity to explore more technically what is actually going on.

@tibuch
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tibuch commented Jun 13, 2023

That is a good point. Maybe we can take the image from the mean-module and add some salt&pepper noise?

@tischi
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tischi commented Jun 13, 2023

There are a bunch of example images mentioned in the activity: does one of them work?

Otherwise feel free to add another one!

@tischi tischi added the enhancement New feature or request label Jun 13, 2023
@tibuch
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tibuch commented Jun 13, 2023

This one might be good. It is closer to reality but one can still cover the more theoretical parts.
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@tibuch tibuch linked a pull request Jun 13, 2023 that will close this issue
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@tischi
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tischi commented Jun 13, 2023

Yes, I thought this is the one we use for the Fiji implementation of the activity.

Even better would be something that contains some actual biological objects....

@manerotoni
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Why not a typical microscopy image with shot noise LSM?
Something like the example image in imageJ mitosis 5D?
Ideally an image that contains different type of structures (filaments, dots, blobs)
Next time I have such a sample I will acquire a low resolution image

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Change example image. NEUBIAS/training-resources
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@tischi @manerotoni @tibuch