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This might be a poor exercise but I'm trying to understand the methods of paper and if it makes sense to adapt my linear-based workflow with PCA to non-linear manifold methods; thought trying out diff…
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Hi!. I try to show the differentiation trajectory of HSC followed the tutorial. After PCA, diffusion, palantir, I got a unexpected figure.
The branch tip cells looks like a string. I try to add th…
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The diffusion map is a dimensionality reduction technique that uses a transitional probability as its "distance" measure. It is noise-resistant and non-linear. Moreover, the algorithm itself is fast a…
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Thank you for you great work! But I'm missing a detail on the encoder. Could you explain it more?
1. What is the network architecture that is used to encode input images, LDR maps, and HDR maps?
2…
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Hello,
This is a very good tool! However, I have some questions while running the code.
1, I want to calculate the density changes of a specific cell type subpopulation under different treatment…
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Is the visualization in pixel space or latent space?
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I'm following the tutorial:
https://github.com/r3fang/SnapATAC/blob/master/examples/10X_brain_5k/README.md
Using a dataset with ~50K cells.
The diffusion maps stage crashes after a short while wi…
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Hi, I have pre-processed my single cell RNA-seq dataset in seurat with its standard pipeline, including normalization, identification of highly variable features and scaling the data, and then I impor…
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Traceback (most recent call last):
File "/base/stable-diffusion-v152/stable-diffusion-webui/modules/call_queue.py", line 58, in f
res = list(func(*args, **kwargs))
File "/base/…
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Sorry to interrupt, code error Traceback (most recent call last).
File "main.py", line 153, in
adv_image, clean_acc, adv_acc = run_diffusion_attack(tmp_image, label[ind:ind + 1].
File "mai…