Step by Step Guides

Voxel-Based Morphometry (FSLVBM)

• Need T1-weighted acquisitions (note marrow/meninges problems with BET)

• Initial Processing

• Create directory for analysis and copy images there

• Run stages of FSLVBM via scripts

  • BET (fslvbm_1_bet)

    • View outputs and troubleshoot as appropriate

  • Create template and registrations (fslvbm_2_template)

    • View outputs and troubleshoot as appropriate

  • Perform modulation and smoothing (fslvbm_3_proc)

    • View outputs and troubleshoot as appropriate
  • Choose the appropriate smoothing
    • plausible biological locations and reasonably matched to size of significant clusters
  • Setup GLM design matrix and contrasts (use GLM GUI)

  • randomise (choice of 500 vs 5000 samples if based on p-value accuracy - see table of p-value errors)