In MetaboAnalyst volcano plots, not all statistically significant metabolites are labeled even when they pass the FC and p-value thresholds. Could you clarify how the labeling algorithm selects features for annotation? Is there an internal ranking based on effect size, adjusted p-value, or plot readability constraints? Additionally, is there a way to force labeling of all significant metabolites?
I enter the same parameters as in the picture you sent, but the result tells me that there are 31 sign-up and 11 sign-down metabolites, but when I download the plot, the number labeled is very small. How can I fix this?
Can you give it a try? Should be fixed
Hi,
This issue should be fixed now. MetaboAnalyst and MetaboAnalyst-Pro has been updated.
Please try and let us know.
Best regards,
Zhiqiang