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[Essential] system size - data size relationship analysis
- why
- question is indeed too hard
- too many/few time points for each trajectory
- only config level limit, better fine-tuning c…
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Hi guys, really liking the pySCENIC adaptation (saving alot of time in our hands!) however, Im having the following issues with pySCENIC grnboost (through command line) when running on a large integra…
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To summarize our discussion from yesterday, here are the TODO items:
1) use a 2 convolutional layers.
2) stratify magnitude and variance to sample held-out genes.
3) hold out i) random and ii) en…
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Hi,
The cytoscape plugin hints that we could use the outputs from EnrichR( https://maayanlab.cloud/Enrichr/ ) . I was wondering if there is a tutorial on how get the gmt files from EnrichR and how …
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Let me start by congratulating you on this great simulation tool!
So as the title suggests, is there a way to simulate a knockdown or knockout in BoolODE? In a related fashion, is there a way to set …
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Hi,
sorry that i still have several questions to bother you.=.=
1.in the part of regulators network,labels of some genes are printed as picture below shows while other equal-sized ,equal-colored …
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http://doi.org/10.1371/journal.pcbi.1005403
> Understanding the cell-specific binding patterns of transcription factors (TFs) is fundamental to studying gene regulatory networks in biological syste…
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The team should check out this article, especially @NAnguiano and @anuvarsh.
[Kumar, S., & Dudley, J. (2007). Bioinformatics software for biologists in the genomics era. Bioinformatics, 23(14), 171…
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**Have you checked the [list of proposed rules](https://github.com/Benjamin-Lee/deep-rules/issues?q=is%3Aissue+is%3Aopen+label%3Arule) to see if the rule has already been proposed?**
- [x] Yes
…
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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…