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Hi,
I am attempting to write a as-fast-as-possible (tensorflow/python) dataloader for WSI patches. I looked in the issues for keywords like "fast", "speed", "accelerate", but did not find any best pr…
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Hi,
I am currently working on whole slide histology images, and my workflow involves several steps. First, I divide these images into tiles (grid base). Next, I determine whether each tile (patch) …
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Can this also be used for generating corresponding patches from the tumor binary mask?
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Hi, i have the same problem.
I want to perform rare variants (MAF < 1%) analysis in Regenie, and have tried many times to follow your earlier advice to others, but still encounter the s…
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## Description
## To Reproduce
Steps to reproduce the behavior:
1. Choose 'blur' for qc in the tile extraction step:
```
dataset.extract_tiles(qc='blur', # ‘otsu’, ‘blur’, ‘both’, or None #…
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This looks like a very useful software! Are you planning support for 3D images?
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Hi everyone,
I have a dataset consisting of large WSIs in Hamamatsu .ndpi many of which are >5GB in size.
I am able to initialise the slide using something like this:
`test_img = Slide('/path/…
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Hello, First of all, thank you for making this repository open source, and congratulations on publication at https://doi.org/10.1038/s41598-024-52007-5. We are deeply thankful for your contributions a…
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The current pipeline requires masks and images to be the same size for them to all work.
Although some transforms will work fine when there are size discrepancies, it is not uniform across all augmen…
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Hello everybody,
I would like to take a binary black and white mask, upscale it to needed resolution and save it as .tif in order to work with it in openslide, as fast/efficient as possible . Past is…