Question: q-value > 1 in STAMP
0
gravatar for zhangdengwei
7 weeks ago by
zhangdengwei60
zhangdengwei60 wrote:

Hi all,

I am using STAMP, a powerful tool in statistics, to determine which bacteria is differential in my sample. "BH" was adopted to correct the p-value, but the q-value is > 1. It is, in theory, impossible. Does anyone know what happens? Thanks very much.

genus p-values p-values (corrected)

g__Collinsella 0.931588858 1.054628896

g__Oscillibacter 0.914789867 1.05552677

ADD COMMENTlink written 7 weeks ago by zhangdengwei60

In case there is no response, you may consider contacting the developer. E-mail available here: https://beikolab.cs.dal.ca/software/STAMP_FAQs

ADD REPLYlink written 7 weeks ago by Kevin Blighe59k
1
gravatar for zhangdengwei
7 weeks ago by
zhangdengwei60
zhangdengwei60 wrote:

thanks. I have got a reply from the developer. STAMP uses the following definition to calculate BH q-value: q-value = p-value*(total number of hypotheses tested)/(rank of the p-value) These are not restricted to be <1.0.

ADD COMMENTlink written 7 weeks ago by zhangdengwei60

Thank you. I have moved this to an answer.

ADD REPLYlink written 7 weeks ago by Kevin Blighe59k
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