sdm-help-list
sdm-help-list > RE: visualizing VBM results
Jan 15, 2018 01:01 PM | Anton Albajes-Eizagirre - FIDMAG - Germanes Hospitalaries
RE: visualizing VBM results
Dear Colleen,
Regarding which maps to visualize in MRICron, what SDM does is load the SDM template (located in the 'share' folder of the SDM package) and then add two overlays: the one for the activations map (MyMean_z_p_0.00500_1.000_10_p.nii.gz in your case) and the other for the deactivations map (in your case it should be named MyMean_z_p_0.00500_1.000_10_p_neg.nii.gz)
Regarding of the bug of MRICron not being launched, could you please let us know which OS you're using and which version of SDM?
Kind regards,
Anton
Originally posted by Colleen Rollins:
Regarding which maps to visualize in MRICron, what SDM does is load the SDM template (located in the 'share' folder of the SDM package) and then add two overlays: the one for the activations map (MyMean_z_p_0.00500_1.000_10_p.nii.gz in your case) and the other for the deactivations map (in your case it should be named MyMean_z_p_0.00500_1.000_10_p_neg.nii.gz)
Regarding of the bug of MRICron not being launched, could you please let us know which OS you're using and which version of SDM?
Kind regards,
Anton
Originally posted by Colleen Rollins:
Hi,
I have a question regarding visualizing the results of a VBM meta-analysis (after running the \"Threshold\" command). MRICron is not launching (I have it downloaded and the correct path set), therefore I\'d like to manually load the ICBM template and results overlaid, but I was wondering which files I should load to overlay atop the template (for instance, to create images like the ones in Figure 3 and 4 in "Neuroanatomical Maps of Psychosis Onset: Voxel-wise Meta-Analysis of Antipsychotic-Naive VBM Studies"). I\'m assuming the correct files to overlay are the \"mask_MyMean_z_p_0.00500_1.000_10_peak1.nii.gz\" (for peak1, peak2, etc.), but SDM produces a number of output files and I wanted to confirm. I was also wondering what the differences between these output files were and whether any others would be useful for visualization:
mask_MyMean_z_p_0.00500_1.000_10_peak1.nii.gz
mask_MyMean_z_p_0.00500_1.000_10_blob1.nii.gz
MyMean_z_p_0.00500_1.000_10.nii.gz
MyMean_z_p_0.00500_1.000_10_p.nii.gz
MyMean_z_p.nii.gz
MyMean_z_QH_p.nii.gz
Thanks in advance for your help!
Kind regards,
Colleen
I have a question regarding visualizing the results of a VBM meta-analysis (after running the \"Threshold\" command). MRICron is not launching (I have it downloaded and the correct path set), therefore I\'d like to manually load the ICBM template and results overlaid, but I was wondering which files I should load to overlay atop the template (for instance, to create images like the ones in Figure 3 and 4 in "Neuroanatomical Maps of Psychosis Onset: Voxel-wise Meta-Analysis of Antipsychotic-Naive VBM Studies"). I\'m assuming the correct files to overlay are the \"mask_MyMean_z_p_0.00500_1.000_10_peak1.nii.gz\" (for peak1, peak2, etc.), but SDM produces a number of output files and I wanted to confirm. I was also wondering what the differences between these output files were and whether any others would be useful for visualization:
mask_MyMean_z_p_0.00500_1.000_10_peak1.nii.gz
mask_MyMean_z_p_0.00500_1.000_10_blob1.nii.gz
MyMean_z_p_0.00500_1.000_10.nii.gz
MyMean_z_p_0.00500_1.000_10_p.nii.gz
MyMean_z_p.nii.gz
MyMean_z_QH_p.nii.gz
Thanks in advance for your help!
Kind regards,
Colleen
Threaded View
| Title | Author | Date |
|---|---|---|
| Colleen Rollins | Jan 15, 2018 | |
| Anton Albajes-Eizagirre | Jan 15, 2018 | |
| Colleen Rollins | Jan 15, 2018 | |
| Anton Albajes-Eizagirre | Jan 21, 2018 | |
| Anton Albajes-Eizagirre | Jan 24, 2018 | |
| Layla Lavallé | Jun 5, 2020 | |
| Colleen Rollins | Jan 29, 2018 | |