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Hello,
I am using CollecTRI to study mouse genome, when I run in R `net
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**Describe the bug**
Hey, thanks for this tool, it is giving me great insight about my dataset. I actually have 2 questions:
### **_1_**
Right now, I am trying to follow the tutorials [here](ht…
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**Describe the bug**
```
pySCENIC
pyscenic aucell
pyscenic.cli.pyscenic - ERROR - Expression matrix should be provided in the loom file format.
R-SCENIC
regulons_incidMat
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I am running pySCENIC in command line via docker. I have run the three Docker steps:
docker run -it --rm \
-v /data:/data \
aertslab/pyscenic:0.12.0 pyscenic grn \
--num_workers …
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Hi! Thanks for the great tool!
While I was running the PISCESViper function, I get the message from the viper call "Computing regulons enrichment with aREA" and a loading bar like |==========| 100%…
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Hello,
In order to explore the regulons identified in my data with pySCENIC, I used the list of target genes for select regulons and analyzed them using iRegulon. However, after running the "Predic…
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Hi,
I'm setting up pySCENIC for generating regulons from two Fly brain scRNAseq datasets we generated. The goal is to reproduce to some extent what was done in the aging Drosophila brain atlas (Dav…
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I have been running pyscenic ctx for over 5 days. My unfiltered loom file contains ~7k cells. How long does this step typically take? I am running it from a slurm script on my HPC using the following …
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**Describe the bug**
Hi everyone,
I am currently running SCENIC+ on an HPC machine without internet access. I encountered an issue during GSEA calculations, which I believe could be resolved with a…
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Hello, @SeppeDeWinter.
I was converting scplus_obj.pkl object to annData following GRN velocity tutorial.
```
import pandas as pd
import anndata
import sklearn
auc_key = 'eRegulon_AUC_filter…