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When viewing OME-tiff raster images, a spatial scale bar is included. I'm not sure what data uses in the tiff metadata to support this, or if it is possible to include support when using zarr, but sho…
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I have tiled square images (`2048*2048 * 4 channels, 16 bit`) to be stitched.
`Fiji > Stitching > Positions from file` worked really well with the following `TileConfiguration.txt` file.
```
# …
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I'm looking at this now, I can make you a small test dataset
EDIT: Check if this fits the bill: `cm.mantis/2023_07_21_mm_hsc_dataset/mm_hsc_dataset_2`
_Originally posted by @ieivan…
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When using the ImageIO reader to import large, multi-channel OME TIFFs and extract individual image planes, the y-dimension and channel dimensions are swapped, e.g. for the 96923x64994x4x1x1 (XYCZT fo…
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hi @JoOkuma,
What are your recommended image file format? Are OME-TIFF or OME-Zarr good? What would be the pros and cons?
If so, are you shipping python libraries to open them?
Our current co…
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Dear all,
I would like to ask your help in interpreting OME TIFF metadata:
Could you tell me please if it would be correct to assume that PhysicalSizeX/Y/Z are equal to 1.0, in case these properti…
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Don't you think Tiff files should be checked even if they only have .tiff or .tif extension ?
In OMETIFFFormat.java:
``` java
@Override
protected String[] makeSuffixArray() {
return …
hadim updated
5 years ago
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This is a follow up on #914. Here is the code that breaks
```python
import imageio.v3 as iio
import imageio.v2 as iio2
import numpy, tifffile
data = numpy.random.randint(0, 255, (256, 256, 3), 'u…
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I used the example codes and tutorial to register our H&E and IHC slides. Whereas the code works properly, we have the issue that the ome.tiff registered slides are huge. Some are in the range of ~2…