AFNI Message Board

Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

History of AFNI updates  

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December 08, 2009 01:55PM
If you sort the (masked) p-values in a volume from smallest
(most significant) to largest and index them from 1 to N say,
then as i goes from N down to 1,

q_i = minimum (for m >= i) of N * p_m / m

Ignoring the "minimum" aspect, this means q is basically
p * N / i. But p*N/i is not necessarily a decreasing curve,
as is seen in your case. If the curve ever bottoms out (when
moving from right to left), then q is assigned to the minimum
value (from the right).

Once the curve bottoms out, even as p continues to decrease,
q will not.

The curve will bottom out if there are not enough small p-values.

-----------------------------------------------------------------

To make it more clear, view it from the side of the data.

Suppose there are 1000 voxels in your mask and you set p = 0.02.
Then 20 false positives are expected (1000 * 0.02).

If you still have 100 voxels that survive that threshold, then
q will be 0.2 (20/100), the expected fraction of false positives
(assuming there is no minimum issue), equal to the number of
expected false positives divided by the total number of apparent
positives.

But what happens when you drop p down to 0.01 and the number of
surviving voxels drops down to 40? Then the expected fraction
of false positives would be 10 (=0.01*1000) / 40, or 0.25. So
at a lower p-value your q-value would actually increase from 0.2
to 0.25.

But the q-values are not allowed to increase as the p-values
decrease (the minimum attribute), so maybe your q curve would
bottom out around 0.2.

- rick

Subject Author Posted

FDR correction on 3dttest output

Michael December 04, 2009 05:12PM

Re: FDR correction on 3dttest output

Michael December 04, 2009 05:19PM

Re: FDR correction on 3dttest output

rick reynolds December 06, 2009 09:37PM

Re: FDR correction on 3dttest output

michael December 07, 2009 12:54PM

Re: FDR correction on 3dttest output

rick reynolds December 07, 2009 01:06PM

Re: FDR correction on 3dttest output

michael December 08, 2009 01:25PM

Re: FDR correction on 3dttest output

rick reynolds December 08, 2009 01:55PM

Re: FDR correction on 3dttest output

michael December 08, 2009 02:42PM