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CellRanger
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How to identify real cells in 10X RNA-seq ?
single-cell
10X
Cell calling
DropletUtils
cellranger
updated 5.2 years ago by
Aaron Lun
★ 28k • written 5.2 years ago by
xingxd16
▴ 20
0
votes
1
reply
1.0k
views
Aberrant number of cells
CellBarcode
DropletUtils
emptyDrops()
Cellranger
scRNAseq
updated 2.1 years ago by
rohitsatyam102
▴ 20 • written 2.3 years ago by
gregoire.destreel
• 0
0
votes
0
replies
605
views
Read Cellranger outputs in R, combine as SingleCellExperiment
ReadInR
Cellranger
GEX+Features+VDJ
2.3 years ago
gregoire.destreel
• 0
0
votes
2
replies
269
views
Non-empty droplets versus good quality cells
CellRanger
emptyDrops
scRNAseq
10X
10 weeks ago
rocanja
▴ 60
4 results • Page
1 of 1
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Replies
Comment: Deseq2
by
Ram
▴ 210
Cross-posted on biostars: https://www.biostars.org/p/9596031/
Comment: SpliceWiz collateData error
by
giulia.nicoletto.1
• 0
Hi there, I am facing a similar error. When I try the collateData command collateData( Experiment = expr, reference_path = "./Referen…
Answer: Best way to describe DEseq2 design
by
SamGG
▴ 350
Hi, My own opinion. In the design `~ Batch`, ChemicalA_t1 is the intercept. So, all coefficients refer to this level as a reference. …
Answer: Deseq2
by
ATpoint
★ 4.2k
Ser the vignette https://bioconductor.org/packages/release/bioc/vignettes/DESeq2/inst/doc/DESeq2.html It covers prefiltering (and everyt…
Comment: Counter-directional LFC shrinkage
by
Michael Love
42k
Gene 1 is hard to predict given the paucity of data for the comparison of interest. What is happening is that the relatively low dispersion…
Votes
Answer: Deseq2
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: When should I correct for batch effects
Answer: When should I correct for batch effects
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