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Hi scGPT Team,
I really enjoyed reading the paper. It seems the software requires a significant amount of resources, and was wondering if you might have information on the following:
What are t…
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>The rapid progress of gene expression profiling has facilitated the prosperity of recent biological studies in various fields, where gene expression data characterizes various cell conditions and reg…
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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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We are going to start using GRNsight in BIOL 367 this week. I was writing the protocol and had occasion to look up "ERT1" in the "Load from database" GRN. It was not found. Can we check to see that…
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#### Description
This is a feature request in allow flexibility in elastic net, which allows the user to apply separate penalties to each coefficient of the L1 term. The default value of this penal…
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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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As in, e.g.
> Rämö P, Kesseli J, Yli-Harja O. Perturbation avalanches and criticality in gene regulatory networks. J Theor Biol. 2006;242: 164–170. doi:[10.1016/j.jtbi.2006.02.011](https://doi.org/…
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Dear author, thanks for your work!
However, I meet some questions during use. Would you mind provide some help?
1. How to save result's fig as PDF or SVG file? Such as these example figs in jupyter …
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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 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…