hdWGCNA
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smorabit
High dimensional weighted gene co-expression network analysis
Hello, When I run setDataExpr I get this WGCNA error: ``` Error in WGCNA::goodGenes(datExpr, ...) : datExpr must contain numeric data. ``` I run NormalizeMetacells and have checked the data...
Hi Sam, I encountered another problem with the min_spots parameter. If you set it to default (50) it works perfectly but with anything else I'm getting the following error: Error...
Hello! Great package again! I was wondering if it's possible to add an argument in the `ModuleNetworkPlot` function to specify the number of genes to show in the network plots....
Hi, Thanks for providing such a great package! And do you have a plan to add that function in this package? Differential network analysis can be used to identify changes...
Hello, good day. May I ask how can I repel the labels of the genes here so that they are readable? Thank you!!! ``` ModuleUMAPPlot( seurat_obj, edge.alpha=0.25, sample_edges=TRUE, edge_prop=0.1, #...
Hello Sam, As part of my differential connectivity experiment I'm shuffling cell condition label and remaking the TOM for the FDR. Despite I'm setting random seed for each iteration, shuffling...
**Describe the bug** I believe the function ConstructNetwork creates temporary .rda files in the cwd of R instead of saving to the path provided for the tom files. I was...
Hi Sam, I'd like seek your input on my understanding of the kME and how I'd like to use it for condition-wise comparison As stated in my other postes, I'm...
Hello, I was wondering if there is a "good" / "correct" way for tweaking the number of discovered modules? I.e. I'm running a dataset of 300k cells, but I only...
**Describe the bug** When I use MetaspotsByGroups to treat my seurat_obj, It reports error. Looks like follow: ``` Not validating Seurat objectsNot validating Seurat objectsNot validating Seurat objectsNot validating Seurat...
