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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
831
views
Tissue Level Differential Expression Analysis
DESeq2
DifferentialExpression
differentialex
Pseudobulk
SingleCell
updated 15 months ago by
Michael Love
41k • written 15 months ago by
skanda.hebbale
• 0
0
votes
5
replies
747
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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
369
views
Right way to pseudobulk donors across replicates in edgeR
pseudobulk
edgeR
DifferentialExpression
updated 6 weeks ago by
Gordon Smyth
50k • written 6 weeks ago by
Jack S.
▴ 50
0
votes
1
reply
327
views
Pseudobulk-DESeq2 analyze multiple cell types at once?
pseudobulk
DESeq2
updated 8 weeks ago by
Michael Love
41k • written 8 weeks ago by
puffsquash
• 0
6 results • Page
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Answer: OrgDb for maize
by
Guido Hooiveld
★ 3.9k
I notice the data you are working with is based on `ensembl` ids. This is important, because the `OrgDb` are annotation databases that are …
Comment: Theoretical WGCNA Question
by
Garrett
• 0
Thanks Peter!
Comment: FGSEA pre-ranked input in increasing order or decreasing
by
sropri
• 0
Thank you!
Comment: FGSEA pre-ranked input in increasing order or decreasing
by
alserg
▴ 240
They are reorder in the decreasing order.
Comment: significant difference of p-values with dream() after updating VariancePartition
by
Le
• 0
Thanks for your reply @gabrielhoffman ! I've been trying to isolate the changes, and v1.32.5 had the same results as v1.33.1 while v1.30.0…
Votes
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
Comment: DEXSeq DEXSeqDataSet count matrix duplication
Comment: Error in champ.load(): The following specified files do not exist
Answer: Error in read.metharray(basenames = files, extended = extended, verbose = verbos
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