2
votes
Accepted
How do I correctly format my limma/eBayes code?
You need to look at how to create a model matrix : https://www.rdocumentation.org/packages/stats/versions/3.6.2/topics/model.matrix
In your code, you did not specify the data from which the Sex ...
- 236
2
votes
Accepted
How do I fix this limma line?
My guess is you need to index matchedgeneTPM before you run lmFit(), not after:
...
- 1,621
2
votes
To find genes that don't change in RNA-seq, Deseq2 has altHypothesis="lessAbs". Is there a way to make limma do the same thing for proteomics?
There is no direct support for this by best knowledge. Similar questions have been asked previously in the Bioconductor support forum, for example:
https://support.bioconductor.org/p/64300/#64793
They ...
- 948
1
vote
Pathway Enrichment Analysis for one specific pathway?
Two questions
Significance
Lack of consistency between enzymes (log2) within the arginine and proline metabolism pathway.
. 1. We've dealt with significance in a past post on Limma (it was not voom ...
M__♦
- 11.3k
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