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emptydrops
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0
votes
2
replies
219
views
Non-empty droplets versus good quality cells
CellRanger
emptyDrops
scRNAseq
10X
7 weeks ago
rocanja
▴ 60
0
votes
1
reply
679
views
Choosing the right lower limit for emptyDrops
SingleCell
emptyDrops
10X
updated 12 months ago by
Peter Hickey
▴ 740 • written 12 months ago by
sandra.garces.19
• 0
4
votes
5
replies
2.4k
views
`emptyDrops()` calling 'too many' non-empty droplets
DropletUtils
emptyDrops
scRNA
scRNAseq
10x
21 months ago
Peter Hickey
▴ 740
1
vote
1
reply
1.1k
views
Number of non-empty drops returned by emptyDrops() depends on value of test.ambience
DropletUtils
emptyDrops
10x
updated 3.3 years ago by
Aaron Lun
★ 28k • written 3.3 years ago by
Peter Hickey
▴ 740
4
votes
5
replies
2.0k
views
emptyDrops identified less non-empty cells with lower total UMI counts?
DropletUtils
scRNA-seq
emptyDrops
simplesinglecell
cell calling
updated 3.5 years ago by
Aaron Lun
★ 28k • written 4.7 years ago by
C T
▴ 140
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
0
votes
2
replies
1.0k
views
Scalability of emptyDrops() running times
dropletutils
emptydrops
updated 5.0 years ago by
Aaron Lun
★ 28k • written 5.0 years ago by
rosano
• 0
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Comment: Extremely small p-values using Limma for proteomic data
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James W. MacDonald
65k
If you ever find yourself using the `@` function, you should reconsider what you are doing. There are vanishingly small instances when an e…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
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Here is some example code <https://gist.github.com/mikelove/cbbc84634b6854c865cb5eb08ad9b245>
Comment: How to use spike-in information (sequences from another species) with DESeq2::DE
by
maria.soler
• 0
Hi, I have a question barely related to this topic. Do you use a custom reference genome combining your organism and the one used as a spik…
Answer: Differential gene expression analysis results
by
ATpoint
★ 4.1k
Pease do not open multiple posts for the same issue: https://support.bioconductor.org/p/9158194/#9158222 The support site is not meant f…
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by
sajadahmad41454
• 0
thank you for your response, should i remove or discard that sample? since the red outlier on left represents one of healthy samples.
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Comment: Log-cpm values from limma
Comment: Log-cpm values from limma
Comment: deseq2 results
Comment: deseq2 results
Answer: Multi-factorial, longitudinal disease progression analysis with unbalanced patie
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