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Case1
Case1
 
 
Case2
Case2
 
 
Case3
Case3
 
 
error_lists
error_lists
 
 
images
images
 
 
segment
segment
 
 
src
src
 
 
BITE_MRI_to_US.sh
BITE_MRI_to_US.sh
 
 
BITE_MRI_to_US_linear.sh
BITE_MRI_to_US_linear.sh
 
 
BITE_MRI_to_US_nifty_deeds.sh
BITE_MRI_to_US_nifty_deeds.sh
 
 
BITE_loop.sh
BITE_loop.sh
 
 
BITE_loop_output.txt
BITE_loop_output.txt
 
 
BITE_nifty_deeds_loop.sh
BITE_nifty_deeds_loop.sh
 
 
LICENSE
LICENSE
 
 
MRI_to_US.sh
MRI_to_US.sh
 
 
MRI_to_US_linear.sh
MRI_to_US_linear.sh
 
 
MRI_to_US_nifty_deeds.sh
MRI_to_US_nifty_deeds.sh
 
 
MRI_to_US_nifty_deeds_post.sh
MRI_to_US_nifty_deeds_post.sh
 
 
MRI_to_US_nifty_masked.sh
MRI_to_US_nifty_masked.sh
 
 
MRI_to_US_post.sh
MRI_to_US_post.sh
 
 
MRI_to_US_post_linearBCV.sh
MRI_to_US_post_linearBCV.sh
 
 
MRI_to_US_rigid.sh
MRI_to_US_rigid.sh
 
 
Makefile
Makefile
 
 
Own_MRI_US.sh
Own_MRI_US.sh
 
 
README.md
README.md
 
 
US_eval.sh
US_eval.sh
 
 
US_to_MRI.sh
US_to_MRI.sh
 
 
US_to_MRI_large.sh
US_to_MRI_large.sh
 
 
_config.yml
_config.yml
 
 
abdomen_example.sh
abdomen_example.sh
 
 
applyBCV
applyBCV
 
 
applyBCVfloat
applyBCVfloat
 
 
automatic_registration_US_to_MRI.sh
automatic_registration_US_to_MRI.sh
 
 
automatic_registration_easy_resect.sh
automatic_registration_easy_resect.sh
 
 
bucket
bucket
 
 
calculate_init_tre.sh
calculate_init_tre.sh
 
 
calculate_init_tre_BITE.sh
calculate_init_tre_BITE.sh
 
 
calculate_init_tre_post.sh
calculate_init_tre_post.sh
 
 
calculate_mean_tre.py
calculate_mean_tre.py
 
 
compute_dimensions.py
compute_dimensions.py
 
 
convert_and_apply_deeds_npz16.py
convert_and_apply_deeds_npz16.py
 
 
deedsBCV
deedsBCV
 
 
eval_large.sh
eval_large.sh
 
 
example_seg_overlay_deeds.jpg
example_seg_overlay_deeds.jpg
 
 
forloop.sh
forloop.sh
 
 
forloop_init.sh
forloop_init.sh
 
 
forloop_init_BITE.sh
forloop_init_BITE.sh
 
 
forloop_init_BITE_output.txt
forloop_init_BITE_output.txt
 
 
forloop_init_output.txt
forloop_init_output.txt
 
 
forloop_init_post.sh
forloop_init_post.sh
 
 
forloop_nifty_deeds.sh
forloop_nifty_deeds.sh
 
 
forloop_nifty_deeds_output.txt
forloop_nifty_deeds_output.txt
 
 
forloop_nifty_deeds_post.sh
forloop_nifty_deeds_post.sh
 
 
forloop_nifty_deeds_post_output.txt
forloop_nifty_deeds_post_output.txt
 
 
forloop_nifty_masked.sh
forloop_nifty_masked.sh
 
 
forloop_nifty_masked_output.txt
forloop_nifty_masked_output.txt
 
 
forloop_output.txt
forloop_output.txt
 
 
forloop_post.sh
forloop_post.sh
 
 
forloop_post_output.txt
forloop_post_output.txt
 
 
generate_zero_displacements.py
generate_zero_displacements.py
 
 
get-pip.py
get-pip.py
 
 
landmarks_centre_mass.py
landmarks_centre_mass.py
 
 
landmarks_centre_mass_missing_vals.py
landmarks_centre_mass_missing_vals.py
 
 
landmarks_split_txt.py
landmarks_split_txt.py
 
 
linearBCV
linearBCV
 
 
new_file_parsed
new_file_parsed
 
 
pad_MRI.sh
pad_MRI.sh
 
 
preprocessAbdomen
preprocessAbdomen
 
 
scratch_pad.sh
scratch_pad.sh
 
 
transpose.py
transpose.py
 
 
voxel_size.py
voxel_size.py
 
 
zero_displacements.dat
zero_displacements.dat
 
 

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deedsBCV repository to produce dissertation results

This is a repository containing the code that I used to produce my dissertation results. It is based on the work of Mattias Heinrich, the author of the deedsBCV framework.

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