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adjustment
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9
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LIMMA for paired analysis with adjustment for confounding continuous variables
limma
gene expression
confounding
adjustment
paired
8.5 years ago
Loodramon
• 0
0
votes
4
replies
5.0k
views
RNAseq Adjusting for Covariates?
RNA
rnaseq
Covariate
adjustment
deseq
updated 8.1 years ago by
Michael Love
41k • written 8.1 years ago by
sjs0282
• 0
13
votes
2
replies
6.4k
views
Using limma when continuous and categorical confounders are present at the same time (e.g.age, gender)
limma
covariate
continuous
categorical
adjustment
updated 8.8 years ago by
Gordon Smyth
50k • written 8.8 years ago by
sg45653
• 0
1
vote
2
replies
2.2k
views
How to adjust for different cell type mixtures in differential expression analysis?
cell types
differential expression
adjustment
mixtures
rnaseq
updated 6.8 years ago by
Ryan C. Thompson
★ 7.9k • written 6.8 years ago by
aec
▴ 90
1
vote
1
reply
783
views
DEP p.val adjustment
DEP
P.vals
adjustment
updated 5.0 years ago by
James W. MacDonald
65k • written 5.0 years ago by
826599
▴ 10
5 results • Page
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Comment: How to make DGEList and design matrix by edgeR package
by
prity6459
• 0
Thank you for your suggestion. Yes, I have made DGEList and design matrix in my script. But I was not entirely confident while making thos…
Comment: Finding DEGs by using edgeR
by
prity6459
• 0
Hello Gordon, Thanks for your response. By normalization, I meant that I have already removed lowly expressed genes from my count matrix. …
Answer: FilterByExpr low counts with small sample size
by
Gordon Smyth
50k
It doesn't seem to me that there is necessarily any problem with the analysis. You that there are "too many low-reads" but actually there …
Answer: How to make DGEList and design matrix by edgeR package
by
Gordon Smyth
50k
Your question is curious because you showed code that made a DGEList and design matrix in your previous post just 15 hours ago. Please h…
Answer: Finding DEGs by using edgeR
by
Gordon Smyth
50k
I am not clear what you mean that you have already normalized your data. How exactly did you normalize the data? The best way to do an edg…
Votes
Answer: OrgDb for maize
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
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