mep-scripts

Collection of scripts related to my Master End Project (MEP) done in the Badura lab at the Erasmus University Medical Center (EMC).

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Name		Name	Last commit message	Last commit date
Latest commit History 106 Commits
.Rproj.user		.Rproj.user
.idea		.idea
.RData		.RData
.Rhistory		.Rhistory
.gitignore		.gitignore
BrainExtraction_RATS.sh		BrainExtraction_RATS.sh
Bru2nii_transition.sh		Bru2nii_transition.sh
RATS_onetime.sh		RATS_onetime.sh
README.md		README.md
_config.yml		_config.yml
analysis_VOI.py		analysis_VOI.py
cerebellar_adjustment_human.py		cerebellar_adjustment_human.py
cerebellar_adjustment_mouse.py		cerebellar_adjustment_mouse.py
compute_mask_volumes.py		compute_mask_volumes.py
compute_volumes_human.py		compute_volumes_human.py
compute_volumes_mouse.py		compute_volumes_mouse.py
convert_nii_nrrd_nii.sh		convert_nii_nrrd_nii.sh
folders2gifs.py		folders2gifs.py
functions.py		functions.py
getNativeCoordinates.py		getNativeCoordinates.py
high_detail_to_low_detail.py		high_detail_to_low_detail.py
imagejScript.ijm		imagejScript.ijm
imagejScript_custom.ijm		imagejScript_custom.ijm
install_AMBMC_FSL_package.sh		install_AMBMC_FSL_package.sh
install_allen.py		install_allen.py
lobular_adjustment_human.py		lobular_adjustment_human.py
lobular_adjustment_mouse.py		lobular_adjustment_mouse.py
low_detail_to_high_detail_cerebellum.py		low_detail_to_high_detail_cerebellum.py
manual_analysis_mouse.py		manual_analysis_mouse.py
mask_adjustment_mouse.py		mask_adjustment_mouse.py
mep-scripts.Rproj		mep-scripts.Rproj
mri_convert_itk.py		mri_convert_itk.py
mri_convert_slicer.py		mri_convert_slicer.py
mri_convert_vtk.py		mri_convert_vtk.py
mricrogl_2D_maxCross_human.py		mricrogl_2D_maxCross_human.py
mricrogl_2D_maxCross_mouse.py.py		mricrogl_2D_maxCross_mouse.py.py
mricrogl_2D_sequence.py		mricrogl_2D_sequence.py
mricrogl_2D_sequence_human.py		mricrogl_2D_sequence_human.py
mricrogl_2D_sequence_mouse.py		mricrogl_2D_sequence_mouse.py
mricrogl_2D_sequence_volumeDifference_human.py		mricrogl_2D_sequence_volumeDifference_human.py
mricrogl_2D_sequence_volumeDifference_mouse.py		mricrogl_2D_sequence_volumeDifference_mouse.py
mricrogl_3D_rotate360.py		mricrogl_3D_rotate360.py
mricrogl_3D_rotate360_human_dataset.py		mricrogl_3D_rotate360_human_dataset.py
mricrogl_3D_rotate360_human_isolationsDataset.py		mricrogl_3D_rotate360_human_isolationsDataset.py
mricrogl_3D_rotate360_mouse_dataset.py		mricrogl_3D_rotate360_mouse_dataset.py
mricrogl_3D_rotate360_mouse_isolationsDataset.py		mricrogl_3D_rotate360_mouse_isolationsDataset.py
mricrogl_save_picture.py		mricrogl_save_picture.py
mricrogl_test.py		mricrogl_test.py
mricrogl_voxCoord_multi_images.py		mricrogl_voxCoord_multi_images.py
postprocess_human.py		postprocess_human.py
prepare_human.py		prepare_human.py
prepare_human_reference.py		prepare_human_reference.py
prepare_mouse.py		prepare_mouse.py
prepare_mouse_reference.py		prepare_mouse_reference.py
prepare_mouse_reference_old.py		prepare_mouse_reference_old.py
process_human.py		process_human.py
process_human_SUIT.m		process_human_SUIT.m
process_human_addRigid.py		process_human_addRigid.py
process_mouse.py		process_mouse.py
process_mouse_SD.py		process_mouse_SD.py
process_mouse_old_addRigid.py		process_mouse_old_addRigid.py
process_mouse_old_getMaxCrossection.py		process_mouse_old_getMaxCrossection.py
process_old_mouse.py		process_old_mouse.py
process_old_mouse_mbmasked.py		process_old_mouse_mbmasked.py
remap_MDS.py		remap_MDS.py
remap_manual_human.py		remap_manual_human.py
remap_manual_mouse.py		remap_manual_mouse.py
retransform_human.py		retransform_human.py
retransform_mouse.py		retransform_mouse.py
return_from_MDS.py		return_from_MDS.py
rscript.R		rscript.R
running_script.py		running_script.py
shape_dissimilarity.py		shape_dissimilarity.py
shape_dissimilarity_human.py		shape_dissimilarity_human.py
shape_dissimilarity_mouse.py		shape_dissimilarity_mouse.py
shape_dissimilarity_mousehuman_split.py		shape_dissimilarity_mousehuman_split.py
stanford_test.nii.gz		stanford_test.nii.gz
structure_isolation_human.py		structure_isolation_human.py
structure_isolation_mouse.py		structure_isolation_mouse.py
symmetric_diffeomorphic_registration.py		symmetric_diffeomorphic_registration.py
syn_registration_3d.py		syn_registration_3d.py
syn_single.py		syn_single.py

EnzonioBanderas/mep-scripts

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