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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
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Thank you for your reply.
To see the image that I would like to see after saving the map, I should control threshold value in FSLview.
In AFNI, I used manual range, set the max value to 1 and set p-value to 0.5. I would like to see positive correlation, so I think the threshold value from 0 to 1.
However, it doesn't look like what I saw in AFNI. It doesn't seem to cut off. The only c
by
Seul
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AFNI Message Board
Hello,
I would like to save the correlation map that is from InstaCorr.
I used 'define data mode -> SaveAs -> Olay', and converted it to nifti and checked it on Fslview.
But it is not the same as the correlation map that I got in AFNI.
I used Instacorr, and checked Pos (only see positive correlation), manual range (0 to 1), set p-value to 0.05 and clusterized.
I am not sure
by
Seul
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AFNI Message Board
Hello,
Thank you for your comments.
I mean that there is no difference between the correlation map with p-value 0.05 (without FDR curve) and the one with p-value 0.05/ click FDR curve. I thought when I clicked 'FDR curve', the correlation map would be changed (e.g. less correlation).
Did I misunderstand about FDR?
Thank you for your help.
by
Seul
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AFNI Message Board
Hello,
Thank you for your reply.
I did preprocessing using FSL tool (FEAT), I would like to look for correlation map using AFNI with the 'preprocessed EPI single dataset'.
I am not sure which p-value or any threshold value is appropriate, because the correlation map changes with different threshold value (qutorange/manual, p-value, q-value, etc.)
To show the results of correlat
by
Seul
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AFNI Message Board
Hello,
It is an individual subject, and seed-based correlation analysis.
I drew an ROI on FSL (.nii.gz) and I used this as an ROI in AFNI.
I used
>> 3dmaskave -mask myROI_deoblique.orig -quiet EPI_preprocessed_deoblique.orig > ROItime.1D
>> 3dfim+ -input EPI_preprocessed_deoblique.orig -ideal_file ROItime.1D -out Correlation -bucket Corr_map
these commands.
I overlaye
by
Seul
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AFNI Message Board
Thank you for your help.
But I got the same result using 3dNetCorr.
I think there is something I should control in threshold.
1) I can only see control p-value on that, is there any other thing that I can control?
2) There is auto-range/manual range button, but I cannot see the lower limit control for the range.
Can I control the lower limit as well?
3) For my data, It looks like that i
by
Seul
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AFNI Message Board
Hello,
I created correlation map of resting-stat fMRI in AFNI.
However, I do not know which threshold value is reasonable.
For instance, when I overlaid core_map, it looked like that the ROI is correlated with almost all the voxels in the brain.
I thought I should control threshold value.
What I have done is
1) set p-value to 0.05, turn on 'Pos?' (positive correlation)
or
by
Seul
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AFNI Message Board
Hello,
I would like to find correlation map in Resting -state FMRI using AFNI.
I tried to use 3dMaskAve and 3dfim+ for that.
Also, I used InstaCorr for the analysis, but I am not sure about several options in InstaCorr.
I want to use several voxels as an ROI (that is drawn as a nifti file in FSL), not just 1 voxel.
I am not sure if the "multiple voxels" can be used as an ROI in
by
Seul
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AFNI Message Board