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adjusting p-value for GO analysis

how can i adjust p-values of GO analysis using bonferroni correction? it confused me for several days. it is possible using p.adjust function in R? i d'not know how to set n argument in this function

go gene
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updated by moxu moxu • written by milanlove • milanlove

DAVID tool gave a column named "bonferroni", is it corrected p-value?

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written by milanlove • milanlove

Please use ADD COMMENT or ADD REPLY to answer to previous reactions, as such this thread remains logically structured and easy to follow. I have now moved your post but as you can see it's not optimal. Adding an answer should only be used for providing a solution to the question asked.

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written by WouterDeCoster WouterDeCoster

2 answers

Read the manual

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written by andrew.j.skelton73 andrew.j.skelton73

i read it before you suggest it to me. my goal is select best way to it and also i want to know about n argument

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written by milanlove • milanlove

Have you looked at the example code they provide at the bottom?

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written by andrew.j.skelton73 andrew.j.skelton73

use FDR correction. In R, use:

p.adjust(pval,  method="fdr", ...)
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written by moxu moxu

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