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Hi,
How to generate binary heatmap used in your nature protocol paper (A scalable SCENIC workflow for single-cell gene
regulatory network analysis, Fig.13)? It seems that it cannot be generated with…
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Dear author,
Hello, now I have dozens of time transcriptome data of a plant tissue for several months. Can we implement TOGCN in these samples and build a dynamic regulatory network? If so, how can w…
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Hi @joschif !
Thank you for this helpful package :) I have a couple of questions!
To start, I will just say - I have already tested a lot of parameters in my multiome dataset and can use the def…
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Hello
I am trying to use GENIE3 to infer the gene co-expression regulatory network, but I don’t quite understand some of the instructions in the tutorial, that is, the expression matrix cannot be nor…
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Kobayashi, Kenji, et al. "Using linkage logic theory to control dynamics of a gene regulatory network of a chordate embryo." Scientific reports 11.1 (2021): 1-11.
Not sure where to find the model…
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Hi,
I found the list missed some recent papers:
>[Multimodal Integration] [2022 Nature Biotechnology] Multi-omics single-cell data integration and regulatory inference with graph-linked embedding
…
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I've been seeing my `pyscenic ctx` gets terminated in the middle of the run. My mystery is that it doesn't throw any error message as shown below:
```bash
$ singularity shell -B path/to/work…
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### Data Owner Name
ENCODE Data Coordinating Center
### Data Owner Country/Region
United States
### Data Owner Industry
Life Science / Healthcare
### Website
https://www.encodeproject.org/
###…
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Hi,
I encountered an error while attempting to utilize all quantified genes in order to construct a comprehensive regulatory network, from which I aim to extract subnetworks containing the genes of…
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Hi, I now have the data (10x multiome) for the basic analysis done with Signac, and I want to use it to analyze the specific gene regulatory network. Is there any way to analyze it directly in Signac…