SLICE_Check
===========

Slicewise correlation check to exclude problematic gradient volumes

:Command: ``dmriprep``
:Module version: 0.1
:Module type: ``prep``
:Attributes: ``exclude_gradients``
:Notes: `SLICE_Check README <https://github.com/NIRALUser/DTIPlayground/blob/master/dtiplayground/dmri/preprocessing/modules/SLICE_Check/README.md>`_
:Source: `dtiplayground/dmri/preprocessing/modules/SLICE_Check <https://github.com/NIRALUser/DTIPlayground/blob/master/dtiplayground/dmri/preprocessing/modules/SLICE_Check>`_

Protocol options
----------------

``bSubregionalCheck``
    Check for sub regional images

    :Type: ``boolean``
    :Default: ``false``


``subregionalCheckRelaxationFactor``
    Set the relaxation factor if sub regional check is selected

    :Type: ``float``
    :Default: ``1.1``
    :Used when: ``bSubregionalCheck`` is ``True``


``checkTimes``
    How many times to check

    :Type: ``integer``
    :Default: ``0``


``headSkipSlicePercentage``
    The percentage of front end indices to ignore due to small signals at the ends

    :Type: ``float``
    :Default: ``0.1``


``tailSkipSlicePercentage``
    The percentage of rear end indices to ignore due to small signals at the ends

    :Type: ``float``
    :Default: ``0.1``


``correlationDeviationThresholdbaseline``
    Correlation's Deviation Threshold Baseline

    :Type: ``float``
    :Default: ``3.0``


``correlationDeviationThresholdgradient``
    Correlation's Deviation Threshold Gradient

    :Type: ``float``
    :Default: ``3.5``


``quadFit``
    Quadratic fit of stdev multiple between baseline and gradients

    :Type: ``boolean``
    :Default: ``true``