dipy_extract_b0#

Synopsis#

Extract on or multiple b0 volume from the input 4D file.

Usage#

dipy_extract_b0 [OPTIONS] input_files bvalues_files

Input Parameters#

  • input_files

    Path to the input volumes. This path may contain wildcards to process multiple inputs at once.

  • bvalues_files

    Path to the bvalues files. This path may contain wildcards to use multiple bvalues files at once.

General Options#

  • --b0_threshold

    Threshold used to find b0 volumes. (default: 50)

  • --group_contiguous_b0

    If True, each contiguous b0 volumes are grouped together. (default: False)

  • --strategy

    The extraction strategy, of either:

    • first: select the first b0 found.

    • all: select them all.

    • mean: average them.

    When used in conjunction with the batch parameter set to True, the strategy is applied individually on each continuous set found. (default: mean)

Output Options#

  • --out_dir

    Output directory. (default: current directory)

  • --out_b0

    Name of the resulting b0 volume. (default: b0.nii.gz)

References#

Garyfallidis, E., M. Brett, B. Amirbekian, A. Rokem, S. Van Der Walt, M. Descoteaux, and I. Nimmo-Smith. Dipy, a library for the analysis of diffusion MRI data. Frontiers in Neuroinformatics, 1-18, 2014.

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