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Hi,
We use decoupleR with CollecTRI to quantify transcription factor activity in our bulk RNAseq data. We observe very strange results, where regulons have important activity with high statistical …
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**Bug Description**
When using the regulon_specificity_scores on my auc_matrix, I find that the values are strongly correlated with the size of my groups of cells. This can be seen in the image below…
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```
11:24 Step 3. Analyzing the network activity in each individual cell
Number of regulons to evaluate on cells: 226
Biggest (non-extended) regulons:
Etv1 (3407g)
At…
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Hello,
Thank you for the amazing tool! I am running build_grn, however, I am getting an error when trying to pickle the object. May you please help me debug the error? I've been able to pickle the …
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hi,
thank you for creating an awesome computational pipeline.
i have a quick question regarding the usage of AUCell for pathway analysis. as far as i know, the enrichment terms consist of both up …
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To avoid using any unlicensed resources, I would like to filter out the SIGNOR entries as noted in the license of CollecTRI repository:
> The CollecTRI-derived regulons are freely available for aca…
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I am trying to run the [scMultiome vignette](https://github.com/quadbio/scMultiome_analysis_vignette/blob/main/Tutorial.md), and when running pando, I am stuck with this error:
```
> library(Pand…
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**Describe the bug**
I am using jupyter notebook and running pyscenic.
I am on the ctx step using the code below:
if __name__ == '__main__':
!pyscenic ctx \
C:/Users/name/Documents/…
Su870 updated
12 months ago
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Hi,
Thank you for a very useful tool.
This problem arose when I ran the first step 'Inference of co-expression modules' using pySECNIC, what is the meaning of this warning and what impact does i…
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Error running:
pyscenic grn \
--num_workers 20 \
--output adj.tsv \
--method grnboost2 \
PBMC10k_filtered.loom \
hs_hgnc_tfs.txt
```
(...)
distributed.worker - WARNING - Memory use is high …