napari-segment-blobs-and-things-with-membranes
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haesleinhuepf
A plugin based on scikit-image for segmenting nuclei and cells based on fluorescent microscopy images with high intensity in nuclei and/or membranes.
As discovered in #33 our filters (maximum, median, etc) currently use a square-footprint (`np.ones`), even though a disc/sphere would be biologically more useful. We should update all our filters. ##...
Since the name `Extract slice` is generic I thought it might work for any napari layer. However, the widget does indicate that it only works on image layers though. I...
Hi Marcelo @zoccoler, this adds the Gabor filter and closes #18 Before merging it, I would like to fix some little things. At the moment, the filter produces an image...
Hi @haesleinhuepf , As discussed, it would be interesting to have [scikit-image gabor filters](https://scikit-image.org/docs/stable/api/skimage.filters.html#skimage.filters.gabor) as well. It can help with pixel classification by allowing recognition of directions or texture, as...
Hey @haesleinhuepf Very useful collection of image processing functions in this plugin! I've been trying to use it with OME-Zarr files (using the awesome [napari-ome-zarr plugin](https://github.com/ome/napari-ome-zarr) to read them lazily...
I would like to segment cells in an image with membrane staining. Can I do this with nsbatwm? git-bob comment
git-bob think about how to update the code in this repository to make use of napari's yml plugin definition. You find the documentation for this file format under the headline...
git-bob think about how to update the code in this repository to make use of napari's yml plugin definition. You find the documentation for this file format under the headline...
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A plugin based on scikit-image for segmenting nuclei and cells based on fluorescent microscopy images with high intensity in nuclei and/or membranes.