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At this moment, mpwt only allows to move dat files. It should allow to move other like xml (--mx) or owl files(--mo).
Like:
mpwt -f input_folder --patho --dat --mx -o output_folder
input_folder…
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`get_regulons_AUC` is not able to read the matrix written by `add_scenic_regulons_auc_matrix`.
I think the problem is that `get_regulons_AUC` uses the argument `column.attr.name="MotifRegulonsAUC"`…
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Dear Dorothea developers,
Digging into the code a little bit, I realised the following potential error in the code for `dorothea::run_viper()`, when applied to an object of class Seurat.
```r
…
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I want to use pyscenic CLI for auc-matrix and regulon generation and to use R for downstream analysis.
I know how to generate auc-matrix (just run 'pyscenic aucell') but **I only have a vague ide…
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Hi @All,
The error occurred when runing below code,
library(SCENIC)
library(SCopeLoomR)
loom
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Hi,
I have a problem in the first step of calculates_csi:
```
> regulonAUC regulons_csi str(regulonAUC)
Formal class 'aucellResults' [package "AUCell"] with 6 slots
..@ nGenesDetected : nu…
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I am repeating [this tutorial](https://github.com/aertslab/SCENICprotocol/blob/master/notebooks/SCENIC%20Protocol%20-%20Case%20study%20-%20Cancer%20data%20sets.ipynb) on my own human single-cell gen…
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Hi VSN team :)!
I have noticed that when running SCENIC in the pipeline, the GRNBoost modules adjency table only contains the columns TF-target-importance. For some analyses afterwards, it is inter…
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My question is given the TCGA regulons is located in deprecated branch https://github.com/saezlab/dorothea/blob/deprecated/data/TFregulons/consensus/Robjects_VIPERformat/pancancer/TOP10_pancancer_vi…
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I tried to do this using the export2scope from SCENIC but it didn't work so I decided to go through SCopeLoomR.
Following the vignette, I am getting the following error:
```
> add_scenic_regulo…