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Many thanks and it also resolved the same issue for me!
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I tried egsea.ma and got this error:
gsa = egsea.ma(numeric_matrix, vector_group, probe_annotation, contrasts = contrast_matrix, gs.an…
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Thank you for your response. To clarify, the process of making a heatmap performs rowscaling so it takes the value - (mean/std). And to res…
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sigPathway is another method that does not account for inter-gene correlation and which gives inflated significance, as we showed in our 20…
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I doubt you have that many contrasts. I think that is probably the number of rows. What does `dim(fit)` return (and `head(fit$coef)`)?
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