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Hi and thanks for making this package. I`m trying to implement this on a set of .tiff images with Hyperion data, but without success. Could you please explain to me as descriptive as possible how to u…
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Currently iohub [detects label-free channels](https://github.com/czbiohub/iohub/blob/c72d46ad3c02ac89f3556383d1ef08461214de3f/iohub/lf_utils.py#L10-L63) and writes OME-NGFF metadata fields to display …
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**Describe the bug**
OME-TIFFs fail to load in the spatial viewer, but only in Chrome (and not Firefox or Safari). Resolving this will be necessary to upgrade to vitessce 2.x in the HuBMAP data porta…
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For certain incomplete datasets (https://github.com/mehta-lab/recOrder/issues/320), the current iohub (or `waveorder.io`) would gather the wrong page number (the first page has page number of 511):
…
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Hi @tblattner,
Thanks for your new code, I've been trying it out but having a hard time getting it working entirely in MIST / ImageJ
In general, it seems displaying / outputting any stitched ima…
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Hello,
I'm working on processing segmentation on a CODEX whole slide image using Mesmer. We have successfully been able to run the tool on tile but when I'm running it on the whole slide I'm ending…
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Hi! I've been encountering the following error when running suite2p:
```
----------- SPIKE DECONVOLUTION
----------- Total 0.16 sec.
Plane 1 processed in 216.69 sec (can open in GUI).
total = 4…
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The `WaveorderReader` scrambles the position order when it reads a folder of ome-tiffs.
For example:
```
$ python
>>> from waveorder.io import WaveorderReader
>>> reader = WaveorderReader('/hp…
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I'm looking for a way to recreate arbitrary OME-TIFF files that have been read in memory as `TiffFile` instances. Ideally the conversion should be lossless, i.e. the recreated file should be a byte fo…
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Hello there. I want to try out your software on some of my data but I'm having trouble at the initial registration step. Running into a couple issues. To start, I am not able to supply the channel nam…