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- Fieldmap Computation
- Correction of EPIs
- Example results.
- User Comments on the lab wiki.
- Matlab GUI (no longer supported)
- spm_norm: Script for running SPM's spatial normalization from the command line.
- cine: Fast cine display of EPI images. Facilitates evaluation for motion.
- study_info: Scan a directory tree to create a spreadsheet of salient study informaton.
- dump_header: Display file header contents
- dump_hdrkey: Write a single header value to the output. Useful for scripting.
- convert_file: Convert image formats.
- preprocess: Preprocess fmri data.
- upload_data: Upload data from the scanner.
- Using Python in the lab
Field Map Correction
The fieldmap correction is done with two programs: make_fmap and fieldmap_correction. make_fmap creates a fieldmap from two gradient-echo images acquired with echo times that differ by a few milliseconds (usually 3 ms when imaging at 3T). fieldmap_correction uses this fieldmap to correct the EPIs. make_fmap uses the prelude program from FSL to unwrap the phase images.
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Neuroimaging Methods List
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