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Cellranger
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Non-empty droplets versus good quality cells
CellRanger
emptyDrops
scRNAseq
10X
11 months ago
rocanja
▴ 60
0
votes
0
replies
800
views
Read Cellranger outputs in R, combine as SingleCellExperiment
ReadInR
Cellranger
GEX+Features+VDJ
3.0 years ago
gregoire.destreel
• 0
0
votes
1
reply
1.3k
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Aberrant number of cells
CellBarcode
DropletUtils
emptyDrops()
Cellranger
scRNAseq
updated 2.8 years ago by
rohitsatyam102
▴ 20 • written 3.1 years ago by
gregoire.destreel
• 0
7
votes
12
replies
8.2k
views
How to identify real cells in 10X RNA-seq ?
single-cell
10X
Cell calling
DropletUtils
cellranger
updated 6.0 years ago by
Aaron Lun
★ 28k • written 6.0 years ago by
xingxd16
▴ 20
4 results • Page
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Comment: How to formulate 2 factor nested design in DESeq2
by
Mariane
• 0
Hi JK Kim, I'm having a problem similar to the one you reported. Could you please tell me how you solved this problem? Thanks
Comment: batch effect removal for agilent microarray data
by
gaye.yilmaz
• 0
Thank you
Answer: Pathview visualisation not including positive log2 fold changes
by
James W. MacDonald
68k
Without providing a self-contained example, nobody can tell you if/where you went wrong. Since you get a KEGG pathway with some of the gene…
Comment: Differential variance analysis - can i use deseq2
by
Marwan
• 0
Thanks Michael for your answer, i didnt mean to use Deseq2 directly for the variance testing, but more like asking if using the (VST) data…
Answer: Differential variance analysis - can i use deseq2
by
Michael Love
43k
We don't have a test of differential variance but other Bioconductor packages can, check similar posts (even on the right side bar) or use …
Votes
Answer: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
Suggesting changing the "reply-to" field to the mailing list address.
Answer: UniProt.ws query for single UniRef90 ID takes several minutes
A: How to extract DESeq2 results for an interaction design
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K?
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