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HelenaLC
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muscat
Multi-sample multi-group scRNA-seq analysis tools
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Error: BiocParallel errors element index: 5, 6, 7, 8, 9, 10, ... first error: logical subscript contains NA
#89
charlesgwellem
closed
2 years ago
2
Importing seurat object directly to muscat
#88
ps120195
closed
2 years ago
5
weighting the samples according to the number of cells
#87
stkachev
opened
2 years ago
0
Potential bug in the prepSim code
#86
wanghao98
closed
2 years ago
1
pbHeatmap doesn't match DS gene list?
#85
SimoniMD
closed
2 years ago
2
Error when simulating data use my own sce object
#84
wanghao98
closed
2 years ago
10
Is the counts and logcounts in aggregateData from SCT
#83
bassanio
closed
3 years ago
2
Setting FORCE in simData to increase the number of samples
#82
SirKuikka
closed
2 years ago
1
prepSim error
#81
YingxinLin
closed
3 years ago
1
dummy 'kid' variable for whole dataset DE
#80
lindsaynhayes
closed
2 years ago
1
error in dataset simulation: length(class) == 1L is not TRUE
#79
YiyiChen0328
opened
3 years ago
2
Error in x[[1]] : subscript out of bounds when running pbDS()
#78
Yale73
closed
1 year ago
18
aggregateData Output: How to fetch and write for individual assay
#77
bassanio
closed
3 years ago
1
Error in aggregate Output
#76
bassanio
closed
2 years ago
3
Trouble loading data from GSE96583
#75
meghamsh738
closed
3 years ago
1
Cell-level analysis: Vst method
#74
bassanio
opened
3 years ago
4
Seurat object for DE : Error metadata(pbs)$experiment_info) is not TRUE
#73
bassanio
closed
3 years ago
1
The p_adj.loc results
#72
yuyingxie
opened
3 years ago
2
How to speed up 'binom'
#71
yuyingxie
opened
3 years ago
0
How to set BPPARAM to run parallel
#70
lindsaynhayes
opened
3 years ago
4
Different global and local p value for testing only 1 cluster
#69
wanghao98
closed
3 years ago
3
Muscat doesn't work with one cluster anymore
#68
VPetukhov
closed
3 years ago
2
Missing dependency: statmod
#67
HenrikBengtsson
closed
3 years ago
2
What is the meaning of the "scale" parameter of the "aggregateData" function?
#66
altairwei
closed
3 years ago
4
Problem using covariates with mmDS
#65
lvclark
opened
3 years ago
2
Add rowData to pb object
#64
wmacnair
closed
3 years ago
0
library size correction
#63
ostkampp
closed
3 years ago
2
pbDS() makes error: identical(assayNames(pbs), rownames(n_cells)) is not TRUE
#62
dmsalsgh97
closed
3 years ago
6
`prepSCE`: only replace colData of original SCE
#61
milanmlft
closed
3 years ago
0
Proposal: rename the example `sce` dataset
#60
milanmlft
closed
3 years ago
1
prepSim Error: 2/0 samples retained and length of 'dimnames' not equal to array extent
#59
domi84
closed
3 years ago
5
nbinom1 vs nbinom2 parameterisation
#58
jeffreypullin
closed
3 years ago
2
pbDS normalization
#57
lucia-ramirez
closed
3 years ago
0
unexpected results: mixed models for B cells
#56
victorkleb
opened
3 years ago
5
How to set coef for mmDS
#55
yuyingxie
opened
3 years ago
5
Tests for three groups
#54
yuyingxie
closed
3 years ago
1
The DESeq2 Method for DS Analysis through muscat
#53
ms11863
opened
3 years ago
1
Error when colnames(assays(sce)) != rownames(colData(sce))
#52
frenkiboy
opened
3 years ago
0
When min_cells requirement is not satisfied for one group, that cluster_id is not tested
#51
wmacnair
opened
4 years ago
0
Add vignette section demonstrating pbDS for complex models
#50
wmacnair
opened
4 years ago
2
Move n_cells from metadata to int_colData
#49
HelenaLC
closed
4 years ago
0
Speed up aggregateData()
#48
HelenaLC
closed
4 years ago
2
Parallelisation of pbDS()
#47
HelenaLC
closed
4 years ago
0
How to analyze Seurat subcluster data through Muscat
#46
priyamnarain
closed
4 years ago
0
mmDS using 'nbinom'
#45
yuyingxie
closed
4 years ago
4
Warning for running mmDS
#44
yuyingxie
opened
4 years ago
6
Add control for direction of type genes
#43
ansonrel
opened
4 years ago
0
pbDS takes very long time
#42
crazyhottommy
closed
4 years ago
1
Added utility function to flatten the pseudobulk object
#41
plger
closed
4 years ago
0
Error with aggregateData
#40
SimoneTiberi
closed
4 years ago
4
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