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"source": [
"# I- DESCRIPTION"
]
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"source": [
"qMRinfo('noise_level'); % Describe the model"
]
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"# II- MODEL PARAMETERS\n",
"## a- Create object"
]
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"Model = noise_level;"
]
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"## Download sample data from OSF\n",
"> The current `Model` is an instance of `noise_level` class.\n",
" \n",
"You can manually download the sample data for `noise_level` [by clicking here](https:\/\/osf.io\/ve3xy\/download?version=4)."
]
},
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"dataDir = downloadData(Model,pwd);"
]
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"## b- Set protocol\n",
"> Protocol is set according to the example data\n",
" \n",
"%          |- noise_level object needs 0 protocol field(s) to be assigned:"
]
},
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"# III- FIT EXPERIMENTAL DATASET\n",
"## a- Load experimental data\n",
"%          |- noise_level object needs 2 data input(s) to be assigned:\n",
"%          |-   Data4D\n",
"%          |-   NoiseMask"
]
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"% Data4D.nii.gz contains [70   70    4  197] data.\n",
"data.Data4D=double(load_nii_data('noise_level_data\/Data4D.nii.gz'));\n",
"% NoiseMask.nii.gz contains [70  70   4] data.\n",
"data.NoiseMask=double(load_nii_data('noise_level_data\/NoiseMask.nii.gz'));\n",
" "
]
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{
"cell_type": "markdown",
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"source": [
"## b- Fit experimental data\n",
"> This section will fit data."
]
},
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"source": [
"FitResults = FitData(data,Model,0);"
]
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"## c- Show fitting results\n",
"> * Output map will be displayed.\n",
" \n",
"> * If available, a graph will be displayed to show fitting in a voxel."
]
},
{
"cell_type": "code",
"execution_count": null,
"metadata": {
"collapsed": true
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"outputs": [],
"source": [
"qMRshowOutput(FitResults,data,Model);"
]
},
{
"cell_type": "markdown",
"metadata": {},
"source": [
"## d- Save results\n",
"> * qMR maps are saved in NIFTI and in a structure `FitResults.mat` that can be loaded in qMRLab graphical user interface.\n",
"> * Model object stores all the options and protocol\n",
"> * These objects can be easily shared or be used for simulation."
]
},
{
"cell_type": "code",
"execution_count": null,
"metadata": {
"collapsed": true
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"outputs": [],
"source": [
"FitResultsSave_nii(FitResults, 'noise_level_data\/Data4D.nii.gz');"
]
}
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"url": "https:\/\/www.gnu.org\/software\/octave\/support.html"
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