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pseudobulk
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1.4k
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DESeq2 aggregated single cell data
pseudobulk
SingleCell
DESeq2
21 months ago
fluentin44
• 0
2
votes
0
replies
1.1k
views
How to aggregate pseudobulks: Normalization & Log-Transformation
pseudobulk
scRNAseq
GSVA
12 months ago
Tadeoye
▴ 20
0
votes
3
replies
858
views
Tissue Level Differential Expression Analysis
DESeq2
DifferentialExpression
differentialex
Pseudobulk
SingleCell
updated 16 months ago by
Michael Love
41k • written 16 months ago by
skanda.hebbale
• 0
0
votes
5
replies
807
views
scRNA-seq as pseudobulk for DEseq2: does AggregateExpression() normalize counts?
pseudobulk
seurat
DESeq2
updated 4 months ago by
Kevin Blighe
★ 3.9k • written 4 months ago by
daiane.hemerichbrennan
• 0
3
votes
4
replies
432
views
Right way to pseudobulk donors across replicates in edgeR
pseudobulk
edgeR
DifferentialExpression
updated 8 weeks ago by
Gordon Smyth
50k • written 8 weeks ago by
Jack S.
▴ 50
0
votes
1
reply
394
views
Pseudobulk-DESeq2 analyze multiple cell types at once?
pseudobulk
DESeq2
updated 11 weeks ago by
Michael Love
41k • written 11 weeks ago by
puffsquash
• 0
6 results • Page
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Answer: Method to find pathways different between 2 groups
by
Gordon Smyth
50k
> When I search camera limma on pubmed, I found 2 papers I am unclear what point you are trying to make. limma's camera method has been fo…
Comment: package goseq seems to be not available on the latest version of R
by
Gordon Smyth
50k
limma most certainly is available. It installs in R 4.4.0 and Bioc 3.19 for all platforms without any issues. It has not had any period of …
Comment: package goseq seems to be not available on the latest version of R
by
Patrycja
▴ 20
limma package also isn't available.Is there any information when these packages will be available?
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Michael Love
41k
Check the number of bootstrapped data per chromosome compared to the original, and then you can also look at its distribution. For this it'…
Comment: DNAString: Standard checksum function?
by
Henrik Bengtsson
★ 2.4k
For completeness: SEGUID v2 (https://www.seguid.org/), implemented in CRAN package **[seguid](https://cran.r-project.org/package=seguid)*…
Votes
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Handling multiple differential expression comparisons
Answer: fgsea significant result
Answer: fgsea significant result
package goseq seems to be not available on the latest version of R
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