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PCA-CMI and PCA-PMI method is also well-known in Gene Regulatory Network Structure Inference besides ARANCE,CLR,MI and MRNET. It is highly recommended to make a deep comparison with these two methods…
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Hello!
I am trying to use this to build a gene regulatory network based on my single cell data. However, I am slightly confused by your inputs. In \#3 in your README, I have to input ```gene_pair_l…
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Hi,
I find ANANSE rather useful in inferring regulatory interactions. I would like to use it to connect the peaks to the target genes directly. Is there a way to do that? Can I somehow extract the p…
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### Version
1
### DataCap Applicant
Encyclopedia of DNA Elements (ENCODE)
### Project ID
ENCODE01
### Data Owner Name
ENCODE Data Coordinating Center
### Data Owner Country/Reg…
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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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This issue contains monthly updates to the ranked list of PubMed papers for curation. The full list can be found [here](https://github.com/tanayshah2/bioregistry/blob/5560dcf284f2c0309287e0a5a551e435e…
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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…
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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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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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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
…