TMBIC 陳尹華 李佩芳 盧毓文鄭旭博 Data arrangement Folders no Chinese no space Demo experiment Slice timing temporal adjustment of images sampling Realignment adjustment for subjects head movement between slices ID: 1048177
Download Presentation The PPT/PDF document "fMRI data analysis using SPM8" is the property of its rightful owner. Permission is granted to download and print the materials on this web site for personal, non-commercial use only, and to display it on your personal computer provided you do not modify the materials and that you retain all copyright notices contained in the materials. By downloading content from our website, you accept the terms of this agreement.
1. fMRI data analysis using SPM8 TMBIC 陳尹華、李佩芳、盧毓文、鄭旭博
2. Data arrangement
3. Folders(no Chinese, no space)
4. Demo experiment
5. Slice timing: temporal adjustment of images samplingRealignment: adjustment for subject’s head movement between slicesSegmentation: more precise anatomical imagesCo-registration: link functional images to anatomical image Smoothing: better signal to noise ratioSummary of preprocessing procedure
6. Input of T1 & EPIsOutput of T1 & EPIs DICOM Import
7. Slice TimingInput: EPIs after DICOMTR = time of each scan; TA = TR-(TR/# of slices)TA is the time b/w the 1st and the last slice within one scan. Slice order: interleaved (ex: Simens Skyra)Odd #: 1 3 5 7 … 2 4 6 8 [1:2:# 2:2:(#-1)]Even #: 2 4 6 8 … 1 3 5 7 [2:2:# 1:2:(#-1)]Reference slice: middle one (2 or 1 depending on slice #)
8. Input: ^afOutput: mean EPIs (mean_...), realigned EPIs (raf*), .txt (rp_ar…)Realign Est & Res
9. < 1 voxel (3mm; 2°)Spike < 0.5 voxel (1.5 mm; 1°);
10. Input: T1image after DICOMICBM space template East Asian brainsOutput: C1, C2, msSegment
11.
12. Reference Image (template image): C1 of T1Source image (the image to best match reference image): mean of Realigned EPIsOther images (images to be remain in alignment with the source image): Realigned EPIs (raf*)Coregister (Est)
13. Source image (to be warped to match the template): C1Images to write: coregistered EPIsTemplate image: spm8\tpm\grey.nii.1 Output: wraf*Normalize Est & Wri
14. Input: normalized EPIS, wraf*Output: swraf*Spatial Smooth
15. .ps PDF (automatically saved)Check the results
16. DEP (dependency) the previously processed imagesCreate individual batch for each subjectLink all the preprocessing steps
17.
18. 1st level analysis (individual level)
19. Unit of design: scans (488 scans)Time interval = TR = 2sInput: preprocessed EPIs (swraf*)Conditions: 2 (handedness) x 3 (RT) +1 (error)Regressor: head motion (.txt)Basis function: canonical hrf1st level analysis: Model specification
20.
21.
22. Model estimationOutput: beta (conditions [6+1] + motion [6] + constant [1] =14), Res…Contrast: L_Slow, L_Middle, L_fast, R_Slow, R_Middle, R_Fast, L-R, R-L,… Output: Con(conditions [6]), SPMT(conditions[6])…Report: Threshold p<.001Plot: renderSPM8\rendEstimate Contrasts Report
23.
24. 2nd level analysis (group level)
25. 2nd level analysis: Model specificationDesign: full factorial design: 2 way (2 x 3)
26.
27. Whole Brain Report
28. SPMFxxx.imgXj-view
29. Useful toolshttp://tmbic.nccu.edu.tw