dwi InitParams - vistalab/vistasoft GitHub Wiki

Diffusion weighted parameters for dtiInit

dtiInitParams
 ans = 
                  bvalue: []
           gradDirsCode: []
                clobber: 0
            dt6BaseName: ''
           flipLrApFlag: 0
    numBootStrapSamples: 500
              fitMethod: 'ls'
                  nStep: 50
            eddyCorrect: 1
            excludeVols: []
      bsplineInterpFlag: 0
         phaseEncodeDir: []
                dwOutMm: [2 2 2]
      rotateBvecsWithRx: 0
rotateBvecsWithCanXform: 0
              bvecsFile: ''
              bvalsFile: ''
        noiseCalcMethod: 'b0'
                 outDir: ''

• For Siemens data, we used to change the parameter as follows. But the Gears may handle this correctly for us already. Ask LMP.

  dwParams.rotateBvecsWithCanXform = 1

Parameter descriptions

• clobber:

• 0 prompts user for overwriting,
• 1 overwrite
• -1 use existing files and recompute missing ones

• eddyCorrect:
• 1 do motion correction and eddy correct
• 0 do only motion
• -1 neither
• bvalue: Read from
• gradDirsCode: []
• dt6BaseName: ''
• flipLrApFlag: 0
• numBootStrapSamples: 500
• fitMethod: 'ls' (least squares)
• nStep: 50
• excludeVols: []
• bsplineInterpFlag: 0
• phaseEncodeDir: []
• dwOutMm: [2 2 2]
• rotateBvecsWithRx: 0
• rotateBvecsWithCanXform: 0
• bvecsFile: ''
• bvalsFile: ''
• noiseCalcMethod: 'b0'
• outDir: ''