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Comment: Adjusting for baseline when having longitudinal data, mixed model and no treat by Gordon Smyth 47k

Perhaps you are thinking of data analyses where the dependent variable is something other than expression itself. In the context of gene e…

Comment: Interpret plot from DiffBind by Chris • 0

If I want to find genes that are more open in diseased than control, I can filter out peaks that have highest log2Fold change like this, is…

Comment: Interpret plot from DiffBind by Chris • 0

Hi Rory. There are so many red dot above and below the blue line so it is hard to know which condition are more open, is that correct? Is 1…

Comment: Extract Limma Adjusted Values for Plotting by phelankj • 0

Thanks, on the normalized values using the same formula?

Answer: Extract Limma Adjusted Values for Plotting by James W. MacDonald 63k

You should use `removeBatchEffect` for that.

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Answer: NA transcript values in my Txdb

Comment: Interpret plot from DiffBind

Answer: Use with_go along with other filters in getBM function

Answer: Interpret plot from DiffBind

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Scholar to Mike Smith ★ 6.0k