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Hi,
Does PySCENIC have anything similar to plotTsne_AUCellApp function in R version?
if not, is there any option to transfer PySCENIC results (say, auc matrix and regulons) to R SCENIC object? …
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Hi pySCENIC developers,
I tried with pySCENIC roughly, and the results were pretty good and interesting, which confirmed by our Seurat foundings.
But I am not very sure how to interpret the result…
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Hi. I have been using aracne.networks to implement the VIPER algorithm. I was wondering if it would be possible to obtain a list of datasets/dataset for the regulons, specifically 'regulonpaad'. Somet…
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Hi,
I am running pySCENIC following this vignette:
https://github.com/aertslab/pySCENIC/blob/master/notebooks/pySCENIC%20-%20Integration%20with%20scanpy.ipynb
Everything runs smoothly until the…
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Hi scenicplus team. Thanks for building such a great package! I've been working on generating on a branched differentation tracjetory analysis, but I can't manage to get the plot_potential() graph to …
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Hi,
I am trying to run SCENIC on a subset of cells (Seurat object).
I used the following vignette to do so: Running SCENIC, SCENIC (Single Cell rEgulatory Network Inference and Clustering)
Vign…
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Hello,
We've successfully run through the tutorial with our dataset and were able to detect interesting regulons. In our system, we would greatly benefit from examining the motif weight/probability…
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11:52 Step 2. Identifying regulons
[1] "Cannot call io___ReadableFile__Open(). See https://arrow.apache.org/docs/r/articles/install.html for help installing Arrow C++ libraries. "
Error in runSCENIC…
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Hi Dear Professor,
When I running the SCENIC workflow according to the tutorial file from http://127.0.0.1:12249/library/SCENIC/doc/SCENIC_Running.html, I encounter the following Error Massage w…
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From the cli, the pyscenic ctx could only take one argument of `-o`, so one has to run twice to get the enriched motif and regulon, while each run is very time consuming. Could it be possible to outpu…