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Merge pull request #19 from cpp-lln-lab/dependabot/submodules/lib/nig…
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Bump lib/nighres from `6b3b3eb` to `7293c36`
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@Remi-Gau
Remi-Gau authored Sep 7, 2023
2 parents a665024 + f4b8cc3 commit c9d5bb5
Showing 1 changed file with 1 addition and 1 deletion.
2 changes: 1 addition & 1 deletion lib/nighres
Submodule nighres updated 80 files
+2 −3 .github/workflows/build.yml
+17 −20 Makefile
+7 −7 build.sh
+1 −1 dependencies_sha.sh
+0 −11 doc/microscopy/stack_intensity_mapping.rst
+272 −0 examples/testing_01_quantitative_mri.py
+275 −0 examples/testing_02_cortical_laminar_analysis.py
+167 −0 examples/testing_03_brain_slab_coregistration.py
+185 −0 examples/testing_04_massp_subcortex_parcellation.py
+6 −6 nighres/brain/dots_segmentation.py
+4 −4 nighres/brain/extract_brain_region.py
+3 −3 nighres/brain/filter_stacking.py
+2 −2 nighres/brain/intensity_based_skullstripping.py
+4 −4 nighres/brain/mgdm_segmentation.py
+2 −2 nighres/brain/mp2rage_dura_estimation.py
+3 −3 nighres/brain/mp2rage_skullstripping.py
+6 −6 nighres/cortex/cruise_cortex_extraction.py
+1 −0 nighres/data/__init__.py
+73 −0 nighres/data/download_data.py
+2 −2 nighres/filtering/filter_ridge_structures.py
+3 −3 nighres/filtering/multiscale_vessel_filter.py
+7 −5 nighres/filtering/recursive_ridge_diffusion.py
+2 −2 nighres/filtering/total_variation_filtering.py
+1 −1 nighres/intensity/background_estimation.py
+2 −2 nighres/intensity/flash_t2s_fitting.py
+9 −3 nighres/intensity/intensity_propagation.py
+4 −4 nighres/intensity/lcat_denoising.py
+11 −9 nighres/intensity/lcpca_denoising.py
+7 −7 nighres/intensity/mp2rage_t1_mapping.py
+8 −8 nighres/intensity/mp2rageme_pd_mapping.py
+2 −2 nighres/intensity/phase_unwrapping.py
+2 −2 nighres/intensity/t2s_optimal_combination.py
+3 −2 nighres/io/io_mesh.py
+3 −3 nighres/laminar/laminar_iterative_smoothing.py
+3 −3 nighres/laminar/laminar_regional_approximation.py
+3 −3 nighres/laminar/profile_averaging.py
+1 −1 nighres/laminar/profile_meshing.py
+2 −2 nighres/laminar/profile_sampling.py
+2 −2 nighres/laminar/volumetric_layering.py
+6 −0 nighres/microscopy/__init__.py
+208 −0 nighres/microscopy/linear_fiber_interpolation.py
+250 −0 nighres/microscopy/linear_fiber_mapping.py
+189 −0 nighres/microscopy/linear_fiber_scaling.py
+157 −0 nighres/microscopy/linear_fiber_vector_averaging.py
+229 −0 nighres/microscopy/linear_fiber_vector_estimation.py
+3 −3 nighres/microscopy/mgdm_cells.py
+160 −0 nighres/microscopy/shape_tensor_matching.py
+4 −1 nighres/microscopy/stack_intensity_mapping.py
+1 −1 nighres/microscopy/stack_intensity_regularisation.py
+46 −0 nighres/parcellation/massp-label-list.txt
+14 −14 nighres/parcellation/massp.py
+1 −0 nighres/registration/__init__.py
+208 −16 nighres/registration/apply_coordinate_mappings.py
+185 −125 nighres/registration/embedded_antspy.py
+1,621 −0 nighres/registration/embedded_antsreg.py
+299 −0 nighres/registration/reorient.py
+18 −18 nighres/registration/simple_align.py
+10 −10 nighres/registration/surface_antsreg.py
+1 −0 nighres/segmentation/__init__.py
+32 −32 nighres/segmentation/conditional_shape.py
+1 −1 nighres/segmentation/fuzzy_cmeans.py
+4 −1 nighres/shape/__init__.py
+2 −2 nighres/shape/intrinsic_coordinates.py
+2 −2 nighres/shape/levelset_fusion.py
+2 −2 nighres/shape/levelset_thickness.py
+6 −4 nighres/shape/simple_skeleton.py
+488 −0 nighres/shape/spectral_embedding.py
+1 −1 nighres/shape/topology_correction.py
+6 −4 nighres/statistics/segmentation_statistics.py
+1 −0 nighres/surface/__init__.py
+2 −2 nighres/surface/levelset_curvature.py
+9 −2 nighres/surface/levelset_to_mesh.py
+1 −1 nighres/surface/levelset_to_probability.py
+173 −0 nighres/surface/mesh_data_to_volume.py
+7 −7 nighres/surface/parcellation_to_meshes.py
+2 −2 nighres/surface/probability_to_levelset.py
+137 −0 nighres/surface/probability_to_mesh.py
+1 −1 nighres/surface/surface_mesh_mapping.py
+1 −1 nighres/surface/volume_som_mapping.py
+1 −1 setup.cfg

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