ImageRegistrationFlow

Parameters

static_img_files : string

Path to the static image file.

moving_img_files : string

Path to the moving image file.

transform : string, optional

com: center of mass, trans: translation, rigid: rigid body

affine: full affine including translation, rotation, shearing and scaling (default ‘affine’).

nbins : int, optional

Number of bins to discretize the joint and marginal PDF

(default ‘32’).

sampling_prop : int, optional

Number ([0-100]) of voxels for calculating the PDF.

‘None’ implies all voxels (default ‘None’).

metric : string, optional

Similarity metric for gathering mutual information

(default ‘mi’ , Mutual Information metric).

level_iters : variable int, optional

The number of iterations at each scale of the scale space.

level_iters[0] corresponds to the coarsest scale, level_iters[-1] the finest, where n is the length of the

sequence. By default, a 3-level scale space with iterations sequence equal to [10000, 1000, 100] will be used.

sigmas : variable floats, optional

Custom smoothing parameter to build the scale space (one parameter

for each scale). By default, the sequence of sigmas will be [3, 1, 0].

factors : variable floats, optional

Custom scale factors to build the scale space (one factor for each

scale). By default, the sequence of factors will be [4, 2, 1].

progressive : boolean, optional

Enable/Disable the progressive registration (default ‘True’).

save_metric : boolean, optional

If true, quality assessment metric are saved in ‘quality_metric.txt’ (default ‘False’).

out_dir : string, optional

Directory to save the transformed image and the affine matrix

(default ‘’).

out_moved : string, optional

Name for the saved transformed image

(default ‘moved.nii.gz’).

out_affine : string, optional

Name for the saved affine matrix

(default ‘affine.txt’).

out_quality : string, optional

Name of the file containing the saved quality

metric (default ‘quality_metric.txt’).