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Martijn
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thanks James, but if I do pairwise analyses per subject, I get the impression that I only get the intercepts per gene. Do you mean regardin…
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alexis.weinreb
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Thank you, this does clarify the available options.
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If you have paired data you should block on subject, which is algebraically the same as fitting a model on the difference between treated a…
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Your approach sounds solid! You might also consider plotting a scatter plot comparing log2 fold changes from both datasets to identify gene…
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It looks like the ssgseaParam function might not be passing the correct parameters to GSVA::gsva(). The error suggests that minSize and max…
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