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Comment: Handling Epic Array Data by James W. MacDonald 67k
You can use `model.matrix` to generate the design matrix. See examples in the 'limma User's Guide' or the vignette for the `DMRcate` packag…
Comment: How to get The evolutionary conservation scores for lncRNAs by the phastCons100w by rania.alanany • 0
Thank you for the detailed explanation
Comment: Is it recommended to analyze different tissues together when using edgeR by Lars Roed • 0
Thank you, I'm guessing I could plot the average logCPMs of the tissues against each other to determine if the expression differs, is it po…
Answer: Is it recommended to analyze different tissues together when using edgeR by Gordon Smyth 51k
It is a matter of judgement. If the regions are very similar in expression and the samples have been collected and processed at the same ti…
Comment: Handling Epic Array Data by Melisa Tecik • 0
Thank you so much for the clarification. As you said the replicates are the cells from different plates. For instance, both R01C01 and R05C…
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Answer: Using Affymetrix Custom Array
Answer: Using Affymetrix Custom Array
Answer: Handling Epic Array Data
Answer: DEXSeq errors "Error in scan( line ... did not have 3 elements" and "Error in FU
Answer: Using voom-transformed counts for unsupervised analyses (PCA, Random Forest, Ela
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