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smorabit
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hdWGCNA
High dimensional weighted gene co-expression network analysis
https://smorabit.github.io/hdWGCNA/
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Question about Module Eigengene Loadings
#262
ofarrelle
opened
2 days ago
0
Error in UseMethod(generic = "JoinLayers", object = object) : no applicable method for 'JoinLayers' applied to an object of class "c('Assay', 'KeyMixin')"
#261
Jxuanrui
opened
3 days ago
0
Bug of metacell construction when sample size is small
#90
jaydu1
closed
1 year ago
4
Question about pct.1 and pct.2 from FindDMEs
#259
DelongZHOU
closed
1 week ago
4
Using normalized count for MetacellsByGroups
#260
jeji0209
opened
1 week ago
1
MetacellsByGroups function, I get an error
#100
cccccdoinb
closed
1 year ago
7
Question about interpreting kME
#256
DelongZHOU
closed
2 weeks ago
4
Advice for the workflow, cell type subset analysis, pseudobulk, and running on large datasets
#258
MaximilianNuber
opened
2 weeks ago
1
TOM would not update
#257
DelongZHOU
closed
2 weeks ago
3
pbmc <- ModuleEigengenes( pbmc, group.by.vars = "orig.ident" ) pbmc@misc$PBMC$MEs %>% head NULL
#236
Baozi9
closed
2 weeks ago
2
Using module_trait_correlation to identify gene modules associated with specific disease states.
#242
Li-mengjie
closed
2 weeks ago
10
Removing anti-correlated genes from module
#241
mitchTwoTimes
closed
2 weeks ago
5
Module Eigengenes: Adjust the function to permit fewer pcs to be calculated
#247
jhaberbe
closed
2 weeks ago
1
ConstructNetwork temp .rda file location
#182
DelongZHOU
opened
5 months ago
9
Question about gene-gene edge weight by condition
#251
DelongZHOU
closed
3 weeks ago
3
Tweaking the number of modules
#252
Thapeachydude
opened
1 month ago
2
Error with MetaspotsByGroups and ConstructMetaspots
#250
liuxiawei
opened
1 month ago
2
Error with function MetacellsByGroups (Error in `*tmp*`[[wgcna_name]])
#62
abhisheksinghnl
closed
1 year ago
2
allowWGCNAThreads() use instead of enableWGCNAThreads() for RStudio, MacOSX
#255
bpyenson
opened
1 month ago
0
Error in "MotifOverlapBarPlot" and "MotifTargetScore"
#254
zhezhu123
opened
1 month ago
0
Issue Creating Metacells
#168
Sandman-1
closed
1 month ago
5
Question about module preservation with bulk RNA-seq dataset
#222
zitiansunshine
closed
1 month ago
4
Adjusted npcs to 15
#249
jhaberbe
closed
1 month ago
1
Too few genes with valid expression levels in the required number of samples.
#244
yamihn
closed
1 month ago
2
Should metacell analysis be conducted when the cell numbers of each cell type range from tens to thousands?
#243
zmhsc
closed
1 month ago
2
Error in if (!(multi.group.by %in% names(seurat_obj@meta.data))) { : argument is of length zero
#253
Carl6231
opened
1 month ago
1
performing hdWGCNA analysis for seurat Assay5 object
#246
wangBiojin
opened
1 month ago
1
One error for the function of ModuleEigengenes
#245
SuperSe7enF
closed
1 month ago
2
Adjusted ComputeModuleEigengenes
#248
jhaberbe
closed
1 month ago
0
Enrichr filtering & background
#193
DelongZHOU
opened
4 months ago
4
Question about exporting the networks to Metascape
#223
DelongZHOU
opened
2 months ago
4
Error with ModuleUMAPPlot function in hdWGCNA
#186
venkan
closed
1 month ago
12
Error of SetDatExpr: wgcna_genes obtained from SetupForWGCNA contains "NA"
#210
yizhang-zoey
closed
1 month ago
2
update installation documentation
#240
jowodo
closed
1 month ago
1
Unable to download and install hdWGCNA
#239
atharva-bhagwat
closed
1 month ago
1
Error duing ModulePreservation "Error in multiColor[[s]] : subscript out of bounds"
#235
DelongZHOU
closed
1 month ago
4
Add corrplot as import
#238
bbimber
opened
1 month ago
0
Issue with SetDatExpr() using Seurat v5 object
#237
sang-15
closed
1 month ago
1
Question about color of modules in volcano plots
#194
DelongZHOU
opened
4 months ago
6
Question about differential connectivity analysis
#224
DelongZHOU
closed
2 months ago
2
ModuleNetworkPlot for small networks
#230
DelongZHOU
closed
2 months ago
5
pbmc <- ModuleEigengenes( pbmc, group.by.vars = "Sample" ) # Error in !CheckWGCNAName(seurat_obj, wgcna_name) : invalid argument type
#234
Baozi9
closed
2 months ago
3
Error in ModuleEigengenes
#231
C1165511708
closed
2 months ago
5
seurat object in ModuleEigengenes process : Error ! CheckWGCNAName(seurat_obj, wgcna_name) : invalid argument type
#233
drake77777
closed
2 months ago
3
ModuleEigengenes does not find the data slot
#232
MathieuBo
closed
2 months ago
2
Conda Skeleton for Workflow Integration
#229
shahrozeabbas
opened
2 months ago
1
Question about weird soft power plot
#228
DelongZHOU
closed
2 months ago
2
Are you planning on upgradding hdWGCNA to work with Seurat V5 in the near future?
#174
ozambadam
closed
2 months ago
8
change number of top genes in ModuleNetworkPlot
#58
Brawni
closed
2 months ago
2
How to repel labels in ModuleUMAPPlot()
#18
levinhein
closed
2 months ago
8
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