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constantAmateur
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SoupX
R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
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Devel
#111
constantAmateur
closed
2 years ago
0
Cell Ranger multi support
#110
gilstel
closed
2 years ago
1
quickMarkers specify clusters to compare
#109
parkjooyoung99
closed
2 years ago
1
Calculate contamination proportion for each gene
#108
ghost
closed
2 years ago
1
Does SoupX normalize the matrix X?
#107
hyjforesight
closed
2 years ago
1
Isssue of 'toc' and tod"
#106
kathywawa
closed
2 years ago
1
pointSize in plotChangeMap is fixed to 0.5 when dataType == "soupFrac"
#105
Close-your-eyes
closed
2 years ago
1
SoupX and normalization in Seurat
#104
tkapello
closed
2 years ago
1
How to get old version of soupX?
#103
Yichel518
closed
2 years ago
1
autoEstCont -> plotMarkerDistribution?
#102
bbimber
closed
2 years ago
1
SoupX / Cite-seq?
#101
bbimber
closed
2 years ago
2
Cell specific contamination fraction
#100
mvfki
closed
2 years ago
2
cellranger multi support?
#99
pjlmac
closed
2 years ago
2
Vignette correction
#98
Sergio-ote
closed
2 years ago
1
Preserving ensembl IDs post SoupX
#97
Jay-Leung
closed
2 years ago
2
Estimated global rho inconsistent with the post rho/rho max in the plot
#96
jon-xu
closed
2 years ago
1
Error while manually selecting gene list to determine contamination fraction
#95
samyuktha-suresh
closed
2 years ago
1
Running SoupX with no channel info
#94
MomenehForoutan
closed
2 years ago
1
Error in autoEstCont
#93
twoneu
closed
2 years ago
3
Error in quickMarkers
#92
vertesy
closed
2 years ago
1
Add support for cellranger-arc output
#91
maxim-h
closed
2 years ago
1
Running without filtered counts
#90
royfrancis
closed
2 years ago
1
Cell suffix
#89
ollieeknight
closed
2 years ago
1
Effect of change prior rho?
#88
ms-gx
closed
2 years ago
1
Cholmod error
#87
gkumar09
closed
2 years ago
1
When use different marker genes to start, contamination ratios are quite different
#86
peachgong
closed
2 years ago
1
Invalid cluster specification
#85
peachgong
closed
2 years ago
5
Errror while reading SoupChannel
#84
hothri
closed
2 years ago
1
[proposed label: Question] Clustering
#83
patrickfletcher
closed
3 years ago
0
Fix CRAN submission issues.
#82
constantAmateur
closed
3 years ago
0
Devel
#81
constantAmateur
closed
3 years ago
0
CRAN version not working
#80
ONeillMB1
closed
3 years ago
1
issue in plotMarkerDistribution, dimnames error
#79
kerkhoffwilla
closed
2 years ago
1
On setting mouse transcripts as 0 in scRNA-Seq experiment
#78
Jay-Leung
closed
3 years ago
1
detailed vignette cannot be opened
#77
guanlinW
closed
3 years ago
4
SoupX in single nuclei RNAseq
#76
wmacnair
closed
3 years ago
2
there is no package called ‘spatstat’
#75
brianpenghe
closed
3 years ago
1
Removing ambient oligo-tagged hashtag antibody
#74
soahlee
closed
3 years ago
3
Lumpy contamination estimates
#73
lazappi
closed
3 years ago
2
I don't get the SoupX correction in Seurat object and in VlnPlot
#72
abhisheksinghnl
closed
3 years ago
1
Error in scan(file, nmax = nz, quiet = TRUE, what = list(i = integer(), : scan() richiede 'an integer', invece risulta '146146481146488111'
#71
annaeoc
closed
3 years ago
2
Add option to save plot in autoEstCont
#70
Hrovatin
closed
3 years ago
4
Setting contamination rate manually does not emprove the correction
#69
akramdi
closed
3 years ago
1
Update load10X
#68
constantAmateur
closed
3 years ago
0
Can I still use SoupX to detect ambient RNA if I do not have filtered gene-barcode matrix?
#67
rrchai
closed
3 years ago
1
In dropseq experiment, the droplet matrix is too large to be loaded into the memory
#66
Pentayouth
closed
3 years ago
3
How to set the contamination range for function autoEstCont?
#65
honghh2018
closed
3 years ago
1
Error in setContaminationFraction: Contamination fraction greater than 1 detected
#64
MohamedRefaat92
closed
3 years ago
1
How should the output count table be treated before downstream analysis?
#63
tkapello
closed
3 years ago
1
What count matrix should be used with SoupX?
#62
tkapello
closed
3 years ago
1
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