unravel.register.reg_check module

Use reg_check (rc) from UNRAVEL to check registration QC, copies autofl_`*`um_masked_fixed_reg_input.nii.gz and atlas_in_tissue_space.nii.gz for each sample to a target dir.

Note

• This copies main outputs from reg to a target directory (reg_check by default) for further viewing.

• Optional: To check for overmasking, this also pads the unmasked autofluo image and saves it to reg_outputs, so it can be copied to the target directory.

Next steps:

• reg_check_fsleyes to visualize the registration outputs with an atlas overlay in FSLeyes.

Usage:

reg_check [-td <path/target_output_dir>] [-ro reg_outputs] [-fri fixed_reg_in] [-wa warped_atlas] [-og] [-af autofl_img] [-pad pad_percent] [-d list of paths] [-p sample??] [-v]

unravel.register.reg_check.parse_args()

unravel.register.reg_check.main()