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simpleSingleCell
•
reset
4
votes
5
replies
2.0k
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emptyDrops identified less non-empty cells with lower total UMI counts?
DropletUtils
scRNA-seq
emptyDrops
simplesinglecell
cell calling
updated 3.6 years ago by
Aaron Lun
★ 28k • written 4.7 years ago by
C T
▴ 140
4
votes
6
replies
1.2k
views
Feature selection across batches in simpleSingleCell when spike-ins are not available.
simpleSingleCell
updated 4.8 years ago by
Aaron Lun
★ 28k • written 4.8 years ago by
Angelos Armen
• 0
1
vote
1
reply
681
views
Feature selection across batches in simpleSingleCell "Correcting batch effects" vignette
simpleSingleCell
updated 4.8 years ago by
Aaron Lun
★ 28k • written 4.8 years ago by
Angelos Armen
• 0
5
votes
1
reply
4.5k
views
Error with DropletUtils::EmptyDrops()
DropletUtils
EmptyDrops
simpleSingleCell
updated 21 months ago by
Stefano Mangiola
▴ 10 • written 4.8 years ago by
shbrief
▴ 20
1
vote
5
replies
1.7k
views
Preprocessing in scran::doubletCells
scran
simpleSingleCell
updated 4.8 years ago by
Aaron Lun
★ 28k • written 4.8 years ago by
Angelos Armen
• 0
4
votes
4
replies
2.8k
views
using limma and edgeR for differential expression of Drop-seq/10xGenomics scRNA-seq data
limma
edgeR
simplesingleCell
scran
scater
updated 4.8 years ago by
Aaron Lun
★ 28k • written 4.8 years ago by
Bogdan
▴ 670
4
votes
2
replies
1.6k
views
single cell data: adding random effects for subject with multilevel experiment design
SingleCellExperiment
scran
limma
simpleSingleCell
updated 5.0 years ago by
Aaron Lun
★ 28k • written 5.0 years ago by
Matt Mulé
• 0
1
vote
3
replies
1.7k
views
Troubles with barcodeRanks()
DropletUtils
SingleCellExperiement
DelayedArray
simpleSingleCell
updated 5.0 years ago by
Aaron Lun
★ 28k • written 5.0 years ago by
Steve Pederson
▴ 170
7
votes
2
replies
2.4k
views
Recommendations for combining multiple 10x runs into one SingleCellExperiment
singlecellexperiment
dropletutils
simplesinglecell
updated 5.6 years ago by
Aaron Lun
★ 28k • written 5.6 years ago by
Peter Hickey
▴ 740
0
votes
1
reply
859
views
Unusual graph for Identifying HVGs from the normalized log-expression
workflows
simplesinglecell
updated 5.7 years ago by
Aaron Lun
★ 28k • written 5.7 years ago by
es.azadian
• 0
0
votes
1
reply
957
views
The explanation of plotExplanatoryVariables plot
simplesinglecell
updated 6.2 years ago by
Aaron Lun
★ 28k • written 6.2 years ago by
Xingyu
• 0
1
vote
2
replies
1.8k
views
SingleCellExperiment object cannot be used by Scater package?
scater
singlecellexperiment
simplesinglecell
updated 6.3 years ago by
Aaron Lun
★ 28k • written 6.3 years ago by
Xingyu
• 0
3
votes
2
replies
3.2k
views
Sparse matrices in Bioconductor objects for single-cell analyses
scater
simpleSingleCell
workflows
updated 6.9 years ago by
Aaron Lun
★ 28k • written 6.9 years ago by
sandmann.t
▴ 70
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Comment: all variables in design formula must be columns in colData (Deseq2) error
by
Galina
• 0
thank you!
Comment: all variables in design formula must be columns in colData (Deseq2) error
by
ATpoint
★ 4.1k
coldata_rat <- data.frame(conditions=..., batch=...)
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
by
robersy
• 0
Thank you all for your comments. I will follow your suggestions.
Comment: Numerical differences in DESeq2 output depending on different design matrix cons
by
Ken C
• 0
Hi Michael, thanks a lot for your prompt reply! Not sure if this is appropriate or if you are the right person to ask -- is there anything…
Comment: Numerical differences in DESeq2 output depending on different design matrix cons
by
Ken C
• 0
Well, if I look at genes with baseMean>50, then the relative absolute difference in log2FoldChange (say over the absolute log2FoldChange of…
Votes
biomaRt not working - lazy table error
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
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