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522 results • Page 3 of 11
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Comment: lfcShrink and alpha value by cropero • 0
Thank you for your fast answer, I have everything clear now
Answer: DESeq2 - Comparing Comparisons by James W. MacDonald 67k
Assuming that WC in your equation #2 is different in KD1 subunit1_vs_WC and SCR subunit1_vs_WC, this is just an interaction, and the easies…
Comment: Differential Expression Genes as Independent Variables by James W. MacDonald 67k
An alternative to that is to use the `glmnet` package to fit a regularized regression using all proteins at once.
Comment: Differential Expression Genes as Independent Variables by abadgerw • 0
Thanks. The proposal was not to include all proteins as covariates in one model but to iterate with one protein serving as the independent …
Answer: How to annotate a limma Elist raw class object with an annotation file by James W. MacDonald 67k
Your first step when trying to use a function is to read the help page (`?mapIds`), which will bring this up: ``` Usage: colu…
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A: deseq2 filter the low counts
A: deseq2 filter the low counts
scuttle::perFeatureQCMetrics runs very slow for big scRNA-seq data
Comment: pathview - multiple states
Answer: Crossover design with limma
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