updated 4.2 years ago by
Gordon Smyth
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written 4.2 years ago by
sebastian.lobentanzer
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Comment: Batch correction and repeated measures
by
Gordon Smyth
48k
I mean add the counts, for example by `sumTechReps`. (I always try to say exactly what I mean. If I meant "average" then I would have said …
Comment: Batch correction and repeated measures
by
Jonathan
•
0
Thanks, I'll try that.
BTW, what do you mean by "sum them"? Do you mean averaging them?
Comment: Batch correction and repeated measures
by
Gordon Smyth
48k
I see no evidence of a batch effect. I would be tempted to sum the technical replicates and analyse the data without batch correction.
Comment: Batch correction and repeated measures
by
Jonathan
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0
The technical replicates do look rather similar on the MDS plot, but the axes percentages are rather low... is that enough to draw conclusi…
Comment: Batch correction and repeated measures
by
Gordon Smyth
48k
Have you checked from the MDS plot that there is a visible batch effect for the repeated samples? Batch correction has lots of negative con…
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