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simplesinglecell
•
reset
4
votes
5
replies
1.4k
views
emptyDrops identified less non-empty cells with lower total UMI counts?
DropletUtils
scRNA-seq
emptyDrops
simplesinglecell
cell calling
updated 2.6 years ago by
Aaron Lun
★ 28k • written 3.8 years ago by
C T
▴ 140
4
votes
6
replies
812
views
Feature selection across batches in simpleSingleCell when spike-ins are not available.
simpleSingleCell
updated 3.8 years ago by
Aaron Lun
★ 28k • written 3.8 years ago by
Angelos Armen
• 0
1
vote
1
reply
462
views
Feature selection across batches in simpleSingleCell "Correcting batch effects" vignette
simpleSingleCell
updated 3.8 years ago by
Aaron Lun
★ 28k • written 3.8 years ago by
Angelos Armen
• 0
5
votes
1
reply
3.6k
views
Error with DropletUtils::EmptyDrops()
DropletUtils
EmptyDrops
simpleSingleCell
updated 9 months ago by
stefano.mangiola
▴ 10 • written 3.8 years ago by
shbrief
▴ 20
1
vote
5
replies
1.2k
views
Preprocessing in scran::doubletCells
scran
simpleSingleCell
updated 3.8 years ago by
Aaron Lun
★ 28k • written 3.8 years ago by
Angelos Armen
• 0
4
votes
4
replies
2.1k
views
using limma and edgeR for differential expression of Drop-seq/10xGenomics scRNA-seq data
limma
edgeR
simplesingleCell
scran
scater
updated 3.9 years ago by
Aaron Lun
★ 28k • written 3.9 years ago by
Bogdan
▴ 660
3
votes
2
replies
1.0k
views
single cell data: adding random effects for subject with multilevel experiment design
SingleCellExperiment
scran
limma
simpleSingleCell
updated 4.0 years ago by
Aaron Lun
★ 28k • written 4.0 years ago by
Matt Mulé
• 0
1
vote
3
replies
1.2k
views
Troubles with barcodeRanks()
DropletUtils
SingleCellExperiement
DelayedArray
simpleSingleCell
updated 4.0 years ago by
Aaron Lun
★ 28k • written 4.0 years ago by
Steve Pederson
▴ 170
7
votes
2
replies
1.7k
views
Recommendations for combining multiple 10x runs into one SingleCellExperiment
singlecellexperiment
dropletutils
simplesinglecell
updated 4.6 years ago by
Aaron Lun
★ 28k • written 4.6 years ago by
Peter Hickey
▴ 650
0
votes
1
reply
624
views
Unusual graph for Identifying HVGs from the normalized log-expression
workflows
simplesinglecell
updated 4.7 years ago by
Aaron Lun
★ 28k • written 4.7 years ago by
es.azadian
• 0
0
votes
1
reply
746
views
The explanation of plotExplanatoryVariables plot
simplesinglecell
updated 5.2 years ago by
Aaron Lun
★ 28k • written 5.2 years ago by
Xingyu
• 0
1
vote
2
replies
1.4k
views
SingleCellExperiment object cannot be used by Scater package?
scater
singlecellexperiment
simplesinglecell
updated 5.3 years ago by
Aaron Lun
★ 28k • written 5.3 years ago by
Xingyu
• 0
3
votes
2
replies
2.6k
views
Sparse matrices in Bioconductor objects for single-cell analyses
scater
simpleSingleCell
workflows
updated 5.9 years ago by
Aaron Lun
★ 28k • written 5.9 years ago by
sandmann.t
▴ 70
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Answer: Can VST-transformed community composition data be expressed as relative abundanc
by
Michael Love
40k
The point of the VST is to make the data systematically homoskedastic (that is, not systematic trend of variance over mean, but not e.g. fo…
Comment: How to update a package at Bioconductor
by
ma79
• 0
thanks, just informed the original maintainer to send an email.
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★ 6.0k
Unfortunately, the BioMart LDS functionality have been flaky for a while now e.g. https://support.bioconductor.org/p/9143401/ , https:/…
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Anna
▴ 20
Dear Gordon, these are my metadata. As you see some subject are missing for timepoint 1 Subject Timepoint 1 ID1 Baselin…
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