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Hello everyone! The tools are great so far. I noticed that there is a small but important corner case for the usage of `radius_graph` from `torch_cluster`. When searching for neighbors, the behavior i…
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I am walking through the tutorial from cellrank(https://cellrank.readthedocs.io/en/latest/pancreas_basic.html), I have a interpretation/conceptual question that I am hoping you can quickly help…
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I'm trying to generate a 2D field using the Exponential generator, however there seem to be artifacts when compared to a Gaussian.
A minimal example that works and will generate a smooth image.
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Hi all,
Great work you've been doing on cellxgene. It's been very useful to communication scRNA-seq analysis with our experimental collaborators.
I wanted to put an idea out there for how one co…
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Hi,
After training a CGnet model, I'm using the predicted forces to conduct CG simulations for comparison by the `simulation()` function in the package. The time step size parameter `dt` is describ…
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Dear all
I have been trying to install the packages outside of conda, specifically igraph, and I got the following error code when I input
```bash
wget https://igraph.org/nightly/get/c/igraph-0.7…
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talk to @WardLT if interested
https://www.nature.com/articles/srep34256
https://www.nature.com/articles/ncomms15679
https://journals.aps.org/prb/abstract/10.1103/PhysRevB.96.024104
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I would like a functionality to convert a larger street network to one with less amount of nodes: Created by merging nodes that are closer than a threshold.
Sample usage would be something like:
…
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Dear authors,
I have tried using this package on CyTOF data of ~ 3 million cells but it took such a long time. Do you have any recommendation or rule of thumbs for the parameters?
Thanks in adv…
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Not sure how critical this is for chained timestepping, but the current INPUT fv_tracer files from the coarse-graining contain the `sgs_tke` variable while the RESTART (output) fv_tracer files do not …