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updated 7.9 years ago by
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written 7.9 years ago by
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Comment: Extremely small p-values using Limma for proteomic data
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Robert Castelo
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From the point of view of visualization, I find handy the fact that raw p-values give more resolution than adjusted ones, which allows one …
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ATpoint
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> the results are not satisfactory to me
Well, what is your question? The DESeq2 vignette covers how to do analysis, and some diagnostics…
Comment: Extremely small p-values using Limma for proteomic data
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ATpoint
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It's not an implementation problem I am discussing (it's trivial obviously) -- more that for most purposes the y-axis metric should be the …
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For visualization purposes you can draw an horizontal line at the p-value cutoff that meets the experiment-wide FDR cutoff. For instance, i…
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Ask yourself the question how a gene that is exactly the same everywhere adds anything to any analysis. Heatmaps usually take DEGs to infer…
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