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`make_sample_lr_prod_activity_plots_Omnipath` plot is very big. Also, I have three phenotypes for each sample, two conditions per phenotype. Age: Old, Young, Diesase Recurrence: No, Yes. Smoker: No, Y…
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Uses: #143 #117 #111 #151
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**Describe the bug**
I'm trying to get the MSigDB database for mouse. I tried both
```dc.get_resource("MSigDB", organism=10090)```
and
`dc.get_resource("MSigDB", organism='mouse')`
but they bot…
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Hi,
I am implementing the Omnipath resources for NicheNet analysis on a Windows computer. I was optimizing the parameters for the model as shown below:
```
# Parameter optimization
expression_se…
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Hi,
where can I find omnipath tutorials? I have installed omnipath(Python client for the OmniPath web service), but I don't know how to use it and I cannot find documentation on this github. Or, who …
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Hello!
I was following this tutorial (https://saezlab.github.io/decoupleR/articles/pw_bk.html) for pathway activity inference. I have mouse data, so I tried:
`net [2024-08-06 17:16:45] [SUCCESS] …
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The integration of BioCypher in NC should provide a graph (networkx or CORNETO graph) retrieved from various prior knowledge sources, including OmniPath.
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### Steps to reproduce
I ran into this with concretization with multiple threads/processes (however you do it). I'm guessing it's a race condition - one process unlinks the file and the rest try to d…
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IN:06711429
Requested to be able to compile new NWChem.
Was asked about known good compilers:
> I have used Intel Compilers 2022.2.1 and Intel MPI 2021.7.1 successfully before, although this …
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Hello,
When I try importing pypath or omnipath after installing it, I keep getting AttributeError: 'NoneType' object has no attribute 'msg'. However, it works fine if I delete the the last line of …