Added download_data_local.py and updated 5.1 Filtering #3
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Hi @adiezsanchez. Any reason you closed this PR? Still happy to include your updates, unless there's another problem? |
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Hi @guiwitz felt like it was a lot of changes at once 😅. Maybe I can make multiple smaller commits? I will reopen this anyways so you can check it 😊👍. The segmentation of nuclei was picking up a bit of extra crap though (will need to revisit that). |
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Hi Guillaume,
As I am running through the notebooks I am updating the code and explanations here and there to clarify a few things. I.e. some parameter names have changed in skimage.filters.median from "selem" to "footprint" in the latest versions of scikit-image.
I created a new download_local_data.py file for people like me that run the notebooks in their own computer so the Data is downloaded and extracted into the directory where the rest of the notebooks import the image files from.
Please discard what you deem unnecessary :)