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**AIM:** Add/modify keys in the ivadomed json config file for dealing with microscopy data
Add parameters relative to histology data, examples:
- overlap for inference
- general pixel size (resam…
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Dear developers,
I can't find an explicit format requirements for MRI.
All examples/templates implies Nifti format with one file (.nii). Will the Nifti 2 files (.hdr+.img) will also compatible …
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Hi Ying,
Thank you for sharing the submission example. In the example, the input data is '.mha' format and output is saved to '.mha' as well. However, the '.nii.gz' format were used for both second…
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I'm planning to move the fluorescence reconstructions to `torch` and to the new `model`-based structure.
- the `waveorder_reconstructor/fluorescence_microscopy` class will eventually be deprecated
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Sometimes, when training using the SimCLR method I get some divergent loss function (see attached screenshot). I wonder if anyone has ever experienced this kind of issue when training with SimCLR. Thi…
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If the user calculates Max Intensity Projection on every channel for every FOV, along with maybe some segmentation results, what would be the best way to store them in the new version of zarr store?
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**What are you trying to do?**
I am trying to perform a Spherical Harmonic Fit to fit a surface to my (quite spherical) data.
**Where are you stuck?**
When running the 'Analysis/Surface Fitting…
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https://pycroscopy.github.io/pycroscopy/about.html
> pycroscopy is a python package for **image processing** and scientific **analysis** of imaging modalities such as multi-frequency scanning probe…
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## Background
Aligning sets of coordinates and their pixel intensity data accurately between MSI and other modalities is often visually evaluated which is subjective but not uninformative. Other metr…
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**Describe the bug**
[no Plasmodium by microscopy](http://purl.obolibrary.org/obo/EUPATH_0021027)
Definition: a data item that is the specified output of a microscopy assay that has a sample of bloo…