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BaderLab
/
scClustViz
Explore and share your scRNAseq clustering results
https://baderlab.github.io/scClustViz/
MIT License
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Advice to adapt Iterative Clustering Workflow with Seurat v4.x (throws error)
#53
kloot
opened
1 year ago
0
Updated Ubuntu & R, unable to runShiny()
#52
alexwskh
closed
1 year ago
4
Problem accessing DR embeddings in Seurat object
#51
retropc66
closed
2 years ago
1
runShiny not working
#50
ccnawrocki
closed
2 years ago
4
Installation error: syntax issue in deTest.R line 180
#49
EDePasquale
closed
2 years ago
1
Dev
#48
innesbre
closed
3 years ago
0
A question on using scClustViz on integrated data (Seurat)
#47
martinfalck
closed
3 years ago
2
Capitalization for embeddings needs fixing
#46
innesbre
closed
2 years ago
0
Error in get(lfc[X])[[1]] : subscript out of bounds
#45
ankushs0128
closed
4 years ago
2
Incorporate cluster specificity measures not based on differential expression
#44
whtns
opened
4 years ago
0
unable to find an inherited method for function ‘getMD’ for signature ‘"data.frame
#43
rzaied
closed
4 years ago
2
Are GOI plots ordered by expression?
#42
innesbre
opened
4 years ago
0
Is there a size limit?
#41
iiiir
closed
4 years ago
1
Error in validObject(.Object) while running CalcAllSCV
#40
KabitaBaral1
closed
4 years ago
1
Weird Shiny bugs when using seurat v1 input files.
#39
innesbre
opened
5 years ago
2
DE by GUI fails - unselected set to NA, breaks indexing of sparse matrices
#38
innesbre
closed
5 years ago
1
Dotplot Labels
#37
14zac2
opened
5 years ago
0
Add table save for mdFactorData
#36
gaelder
closed
5 years ago
2
Better file names for GOI overlay plots
#35
gaelder
closed
5 years ago
1
Parameters for sctransform based data
#34
knokknok
closed
5 years ago
1
spreadLabels2 for cell projection
#33
innesbre
closed
5 years ago
0
Support visualizing other DR methods (UMAP, PCA, etc)
#32
innesbre
closed
5 years ago
0
Colour MA plot by FDR
#31
innesbre
closed
5 years ago
0
seurat v3 concerns again
#30
whtns
closed
5 years ago
1
Add testing and coverage reporting
#29
innesbre
opened
5 years ago
0
Reduce number of warnings returned to console by Shiny
#28
innesbre
opened
5 years ago
2
Compatibility with Seurat v3?
#27
whtns
closed
5 years ago
7
Embrace Shiny modular design
#26
innesbre
opened
6 years ago
0
error reading Seurat object
#25
nbahlis
closed
6 years ago
1
Labels missing from MA plot
#24
innesbre
closed
5 years ago
0
Save as PDF buttons
#23
innesbre
closed
5 years ago
2
Volcano plots
#22
innesbre
closed
5 years ago
0
Biaxial plot of genes' expression per cell?
#21
innesbre
opened
6 years ago
0
Marker combinations?
#20
innesbre
opened
6 years ago
2
Fx to pass your own DE results
#19
innesbre
closed
5 years ago
0
GUI for subsetting cells for reclustering?
#18
innesbre
closed
5 years ago
1
End Shiny session when browser window is closed
#17
innesbre
closed
5 years ago
1
ERROR: dependency ‘TeachingDemos’
#16
alextamburino
closed
6 years ago
2
Cluster numbers ordered correctly
#15
innesbre
closed
6 years ago
1
Automated SCE reading
#14
AgingMuscleMU
closed
5 years ago
0
Silhouette plot cluster labels
#13
innesbre
opened
6 years ago
0
Dot painting in cell selection plot occasionally goes wacky.
#12
innesbre
closed
6 years ago
0
Clicking non-existent plot results in crash.
#11
innesbre
closed
6 years ago
1
Open default res automatically
#10
RetinaSCMU
closed
6 years ago
0
Select cells for selDE using metadata
#9
innesbre
closed
6 years ago
3
Colour cells by silhouette width?
#8
innesbre
closed
6 years ago
1
clustWiseDEtest fails when < 3 clusters in a resolution?
#7
innesbre
closed
6 years ago
1
Fx to pass custom deVS and generate deMarker/deNeighb?
#6
innesbre
closed
6 years ago
2
Memory doubling?
#5
innesbre
opened
6 years ago
0
Todo list for v0.30
#4
innesbre
closed
6 years ago
0
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