## User: lucap

lucap0
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Last seen:
6 months, 2 weeks ago
Joined:
9 months, 1 week ago
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#### Posts by lucap

<prev • 5 results • page 1 of 1 • next >
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... Thanks Ludwig for the clear explanation! I see what you mean. I’ll carry the over-representation test then Thanks Luca ...
written 6 months ago by lucap0
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... Hi everyone, Just a quick question. I want to perform GSEA on my geneList using clusterProfiler. Since I have a lot of genes and for some of them the logFC is small, I would like to perform GSEA only on the genes that have a logFC > 2. How do I do that in R? I am following the recommended steps ...
written 6 months ago by lucap0 • updated 6 months ago by Ludwig Geistlinger50
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Comment: C: EdgeR glmTreat error
... Sorry for the three posts, I honestly don't know how I did it... Thanks for the detailed explanation, now I get what you mean about the contrast. So basically with glmQLFTest I will find all genes that are significantly differentially expressed (not up-reg or down-reg, just significantly DE) at ...
written 9 months ago by lucap0
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Comment: C: EdgeR glmTreat error
... Thanks James for your reply. I am sorry but I don't understand what you mean. According to this guide ([link][1]) the object con is a matrix... Plus, sorry, what do you mean with "it makes no sense in the context of an ANOVA-like test of multiple comparisons"? Thanks Luca [1]: https://www.g ...
written 9 months ago by lucap0
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... Hi all, I am using edgeR to identify genes differentially expressed in my experiment. I have cells which were grown in 4 different cell media and I would like to perform an ANOVA to identify DE genes comparing all media vs all (e.g. media1 vs media2; media1 vs media3; media1 vs media4; media2 vs med ...
written 9 months ago by lucap0 • updated 9 months ago by James W. MacDonald52k

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