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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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tar.gz cellranger folders
#161
rbutleriii
opened
1 week ago
0
SoupX error
#160
angelica-varesi
opened
2 weeks ago
0
Error converted from warning
#159
Echoloria
opened
1 month ago
0
plotMarkerMap returns empty plot
#158
Michael-Geuenich
opened
1 month ago
0
Should I run this before or after dead/dying cell removal?
#157
erzakiev
opened
1 month ago
0
Manually setting contamination fraction
#156
yesitsjess
opened
2 months ago
0
How to SoupX for analysed data, Seurat object?
#155
mainharryHR
opened
2 months ago
0
SoupX high contamination guideline
#154
pedriniedoardo
opened
2 months ago
0
Running SoupX on Multiome Data
#153
nic-ghub2
opened
2 months ago
0
RNA velocity
#152
Sirin24
opened
2 months ago
1
Extremely high contamination estimated (0.61)
#151
mibdx-dev
opened
2 months ago
0
Conflicting SoupX results
#150
koushik1989
opened
3 months ago
0
Combining Ambient RNA Methods
#149
Reyhaneh92
opened
4 months ago
0
table of droplets (tod) and table of counts (toc) have different numbers of genes
#148
al3xmlt030
opened
4 months ago
10
Unable to knit when running load10X from SoupX
#147
JasperGattiker
opened
6 months ago
0
Error: No plausible marker genes found
#146
acv21
opened
7 months ago
0
For loops don't seem to work with soupX
#145
Kenneth-new-user
opened
7 months ago
0
Error running SoupX
#144
malonzm1
opened
8 months ago
2
Filtered data from cellranger
#143
silvainp
opened
8 months ago
0
What types of clustering is required?
#142
JiahuaQu
opened
8 months ago
0
Prepare for upcoming Seurat v5 release
#141
saketkc
opened
9 months ago
1
autoEstCont error : Error in quantile.default(soupProf$est, soupQuantile) : missing values and NaN's not allowed if 'na.rm' is FALSE
#140
JS0715
opened
10 months ago
3
dd file is empty
#139
dabbas89
opened
11 months ago
0
Cellranger multi compatibility
#138
Nusob888
opened
1 year ago
1
too few genes that passed tf-idf cutoff
#137
wbvguo
opened
1 year ago
0
Clustering information must be supplied but there is anlysis folder
#136
Tianran1
opened
1 year ago
0
Using SoupX with non-integer counts
#135
me-orlov
opened
1 year ago
1
How to generate a filtered matrix from a raw matrix
#134
sean-takara
opened
1 year ago
1
SOUPX for R4.2.2
#133
alessandrapas
closed
1 year ago
0
`load10x` can't find `clusters.csv` in CellRanger 7.1.0 output
#132
aseyedia
opened
1 year ago
1
Inconsistent cellID in toc and tod
#131
lishuangshuang0616
opened
1 year ago
0
other assay compatibility
#130
roosheelpatel
opened
1 year ago
0
Error in autoestcount
#129
svaidy88
opened
1 year ago
0
introduce SoupX's output into cellranger aggr function
#128
gregorn87
opened
1 year ago
0
Using SoupX for indrops data (non 10x genomics output)
#127
JoyOtten
closed
1 year ago
5
autoEstCont error
#126
joe-jhou2
opened
1 year ago
2
"missing value where TRUE/FALSE needed" when running adjustcounts
#125
xzhouaw
opened
1 year ago
2
`load10X()` doesn't handle multiome data when supplied with `cellIDs`
#124
nh3
opened
1 year ago
0
SoupX on unprocessed (raw) data, but with cluster info?
#123
vkartha
closed
1 year ago
2
Devel
#122
constantAmateur
closed
1 year ago
0
Question about rho_c
#121
Hanxi-002
closed
1 year ago
1
Deprecated method from package "Matrix"
#120
mvfki
closed
1 year ago
5
Should I run this before or after imputation?
#119
ayeTown
closed
1 year ago
1
autoEstCont() error
#118
Polligator
closed
1 year ago
2
Update load10X.R
#117
dnjst
closed
1 year ago
2
autoEstCont() error in SoupX with CellRanger Data
#116
CTChameleon
closed
2 years ago
2
Working with inaccurate cell calling data
#115
RuiyuRayWang
closed
1 year ago
1
plotMarkerMap doubt
#114
MartaSanchezCarbonell
closed
2 years ago
1
Issue importing cellranger 7.0.0 outs
#113
ollieeknight
closed
1 year ago
10
Fixed vignette and package size issue.
#112
constantAmateur
closed
2 years ago
0
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