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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
2 days ago
0
Using normalized count for MetacellsByGroups
#260
jeji0209
opened
1 week ago
1
Question about pct.1 and pct.2 from FindDMEs
#259
DelongZHOU
closed
1 week 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
Question about interpreting kME
#256
DelongZHOU
closed
2 weeks ago
4
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
Error in if (!(multi.group.by %in% names(seurat_obj@meta.data))) { : argument is of length zero
#253
Carl6231
opened
1 month ago
1
Tweaking the number of modules
#252
Thapeachydude
opened
1 month ago
2
Question about gene-gene edge weight by condition
#251
DelongZHOU
closed
3 weeks ago
3
Error with MetaspotsByGroups and ConstructMetaspots
#250
liuxiawei
opened
1 month ago
2
Adjusted npcs to 15
#249
jhaberbe
closed
1 month ago
1
Adjusted ComputeModuleEigengenes
#248
jhaberbe
closed
1 month ago
0
Module Eigengenes: Adjust the function to permit fewer pcs to be calculated
#247
jhaberbe
closed
2 weeks 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
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
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
update installation documentation
#240
jowodo
closed
1 month ago
1
Unable to download and install hdWGCNA
#239
atharva-bhagwat
closed
1 month ago
1
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
pbmc <- ModuleEigengenes( pbmc, group.by.vars = "orig.ident" ) pbmc@misc$PBMC$MEs %>% head NULL
#236
Baozi9
closed
2 weeks ago
2
Error duing ModulePreservation "Error in multiColor[[s]] : subscript out of bounds"
#235
DelongZHOU
closed
1 month ago
4
pbmc <- ModuleEigengenes( pbmc, group.by.vars = "Sample" ） # Error in !CheckWGCNAName(seurat_obj, wgcna_name) : invalid argument type
#234
Baozi9
closed
2 months ago
3
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
Error in ModuleEigengenes
#231
C1165511708
closed
2 months ago
5
ModuleNetworkPlot for small networks
#230
DelongZHOU
closed
2 months ago
5
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
ModuleFeaturePlot - add split.by option
#227
ashleshagogate
opened
2 months ago
1
Question about module overlap with SFARI genes
#226
ashleshagogate
closed
2 months ago
1
Running hdWGCNA on merged dataset and harmonizing on "study"
#225
mitchTwoTimes
closed
2 months ago
1
Question about differential connectivity analysis
#224
DelongZHOU
closed
2 months ago
2
Question about exporting the networks to Metascape
#223
DelongZHOU
opened
2 months ago
4
Question about module preservation with bulk RNA-seq dataset
#222
zitiansunshine
closed
1 month ago
4
"Error: 'RNA' is not an assay" in SetDatExpr
#221
learning-MD
closed
2 months ago
6
Formally add dependencies
#220
bbimber
closed
2 months ago
2
Question about reproducing the vignette results
#219
xyzheng123
closed
3 months ago
1
Question about low cell count groups
#218
DelongZHOU
closed
2 months ago
4
MetaspotsByGroups : Error in `as.Graph()`
#217
Prakrithi-P
closed
2 months ago
2
get error "MetacellsByGroups"
#216
wangmhan
closed
3 months ago
0
Min sample size / biological replicate needed
#215
klai001
closed
2 months ago
1
Got error message "GetAssayData doesn't work for multiple layers in v5 assay"
#214
shadowdeng1994
closed
3 months ago
2
Redundent assignment of genes to modules
#213
Dimmiso
closed
2 months ago
2
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