Doesn't display the p values and FDR

gurbet karahan

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Jan 14, 2021, 2:56:29 PM1/14/21

to webgestalt

Hi everyone,

When I ran a gene ontology analysis, bar graph shows many pathways with significant FDR but when I switch back to table to get exact values of the FDRs it shows 0, how can I fix this? Thanks.

Screen Shot 2021-01-14 at 2.54.33 PM.png

Screen Shot 2021-01-14 at 2.54.18 PM.png

Yuxing Liao

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Jan 15, 2021, 9:36:47 PM1/15/21

to gurbet karahan, webgestalt

Zeros in FDR and p-values are actually smaller than 2.220446e-16. And the smaller the better.

Yuxing

On Thu, Jan 14, 2021 at 1:56 PM gurbet karahan <gurbet...@gmail.com> wrote:

Hi everyone,
When I ran a gene ontology analysis, bar graph shows many pathways with significant FDR but when I switch back to table to get exact values of the FDRs it shows 0, how can I fix this? Thanks.

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gurbet karahan

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Jan 16, 2021, 9:45:03 PM1/16/21

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Hello Yuxing,

Thank you very much. Do you know if there is an equivalent value for the FDR when it gives zero? I usually plot the FDR values of the GO BP results from webgestalt.

Thanks again,

Gurbet

15 Ocak 2021 Cuma tarihinde saat 21:36:47 UTC-5 itibarıyla yuxin...@gmail.com şunları yazdı:

Yuxing Liao

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Jan 17, 2021, 1:05:12 AM1/17/21

to gurbet karahan, webgestalt

No, it is smaller than the precision of float numbers in the system, so R just gives 0. We just used the minimum 2.220446e-16 for plotting.

To view this discussion on the web visit https://groups.google.com/d/msgid/webgestalt/2ccc8f33-a280-44c9-9715-34db0ed87b2fn%40googlegroups.com.

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