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10X
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0
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2
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531
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Non-empty droplets versus good quality cells
CellRanger
emptyDrops
scRNAseq
10X
7 months ago
rocanja
▴ 60
0
votes
1
reply
909
views
Choosing the right lower limit for emptyDrops
SingleCell
emptyDrops
10X
updated 17 months ago by
Peter Hickey
▴ 740 • written 18 months ago by
sandra.garces.19
• 0
0
votes
2
replies
875
views
Compare and filter three BAM files
RNAseq
10X
19 months ago
wt215
• 0
4
votes
5
replies
3.0k
views
`emptyDrops()` calling 'too many' non-empty droplets
DropletUtils
emptyDrops
scRNA
scRNAseq
10x
2.2 years ago
Peter Hickey
▴ 740
1
vote
1
reply
1.2k
views
Number of non-empty drops returned by emptyDrops() depends on value of test.ambience
DropletUtils
emptyDrops
10x
updated 3.8 years ago by
Aaron Lun
★ 28k • written 3.8 years ago by
Peter Hickey
▴ 740
5
votes
3
replies
1.6k
views
Latent factors for differential expression
deseq2
zinbwave
10X
scRNA-seq
Differential expression
updated 4.3 years ago by
Michael Love
42k • written 4.3 years ago by
vincent.croset
▴ 20
4
votes
2
replies
2.8k
views
When to combine samples in the pre-processing of 10x scRNA-seq data?
10x
scrna-seq
updated 5.5 years ago by
Aaron Lun
★ 28k • written 5.5 years ago by
jma1991
▴ 70
7
votes
12
replies
7.7k
views
How to identify real cells in 10X RNA-seq ?
single-cell
10X
Cell calling
DropletUtils
cellranger
updated 5.6 years ago by
Aaron Lun
★ 28k • written 5.6 years ago by
xingxd16
▴ 20
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Comment: limma technical repeat correction
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@gordonsmyth Thank you for getting back to me and apologies for the confusion - `replicates_1` column indicates for a patient (cell line)…
Comment: Question about using LRT test for time course experiments with DESeq2
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• 0
Thanks Mike, I will post here again when this issue gets resolved.
Comment: biomaRt rnorvegicus_gene_ensembl not available anymore
by
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★ 6.5k
You are not the only biomaRt user to encounter this, and I contacted the Ensembl helpdesk. I got the reply below, which hopefully means it…
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