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6 days ago • updated 4 days ago
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Question: How to Set Up Contrasts for Case-Control Analysis in Limma While Adjusting for Covariates?
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288
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7 days ago • updated 6 days ago
katja.danielzik
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updated 5 days ago by
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written 7 days ago by
bioinformaticssrm2011
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Recent ...
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Comment: How to use removeBatchEffect for removing effect of multiple confounding variabl
by
James W. MacDonald
67k
Please don't add questions onto a four-year old post. Instead, start a new one. If you want to reference the old post, that's fine.
Answer: How to use removeBatchEffect for removing effect of multiple confounding variabl
by
bioinformata
•
0
Is it feasible to remove batch effect with limma after variance stabilizing transformation of the gene expression , or is eough to use vst…
Comment: clusterProfiler: BgRatio N value does not match the size of the gene universe th
by
James W. MacDonald
67k
Hi Guido,
It's that last filtering step. You are saying the NCBI Gene ID has to be unique AND the ontology has to be BP, which isn't what …
Comment: AffylmGUI does not start wit R 4.4.1
by
richardallenfriedmanbrooklyn
▴
20
Gordon,
I found out what went wrong. The problem was that the xquartz distribution for mac from cran did not include tcltk! I found that b…
Comment: clusterProfiler: BgRatio N value does not match the size of the gene universe th
by
Guido Hooiveld
★
4.1k
Hi James,
I am likely missing something obvious, but why is the code that I used returning a different number of genes having a GOALL-BP a…
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