example_config.json

{  "config": {
    "flipLrApFlag"       :  0,
    "numBootStrapSamples": 500,
    "fitMethod"          : "ls",
    "nStep": 50,
    "eddyCorrect": -1,
    "bsplineInterpFlag": 0,
    "phaseEncodeDir": 2,
    "dwOutMm_1": 1.25,
    "dwOutMm_2": 1.25,
    "dwOutMm_3": 1.25,
    "rotateBvecsWithRx": 0,
    "rotateBvecsWithCanXform": 1,
    "noiseCalcMethod": "b0",
    "cutoffLower": 10,
    "cutoffUpper": 90,
    "cleanFibers": 1,
    "cleanIter": 5,
    "maxDist": 4,
    "maxLen": 4,
    "numberOfNodes": 100,
    "clip2rois": 0,
    "fiberWeighting": 1,
    "cleanClippedFibers": 1,
    "savefigs": 0,
    "computeCSD": 0,
    "computenorms":1,
    "normalization":"spm",
    "imresample": 1,
    "track_algorithm": "mrtrix",
    "track_stepSizeMm": 1,
    "track_faThresh": 0.05,
    "track_minLengthThreshMm": 4,
    "track_maxLengthThreshMm": 200,
    "track_angleThresh": 30,
    "track_wPuncture": 0.2,
    "track_whichAlgorithm": 1,
    "track_whichInterp": 1,
    "track_offsetJitter": 0,
    "track_seedVoxelOffset_1": 0.25,
    "track_seedVoxelOffset_2": 0.75,
    "track_faMaskThresh": 0.3,
    "track_nfibers": 20000,
    "mrtrix_mrTrixAlgo": "iFOD2",
    "mrtrix_useACT": false,
    "mrtrix_autolmax": false,
    "mrtrix_lmax": 6,
    "mrtrix_multishell":false,
    "mrtrix_tool": "freesurfer",
    "life_runLife": false,
    "life_saveOutput": false,
    "life_discretization": 360,
    "life_num_iterations": 10,
    "life_test": false,
    "life_writePDB": false,
    "AFQ_Output_Name": "afq_output",
    "AFQ_Browser_Title": "AFQ_Browser",
    "ET_runET": false,
    "ET_numberFibers": 200000,
    "ET_minlength": 30,
    "ET_maxlength": 250,
    "ET_angleValues": "47.2, 23.1, 11.5, 5.7, 2.9"
  }
}