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Updated all submodules
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Xiaojieqiu committed Aug 17, 2024
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2 changes: 1 addition & 1 deletion docs/docs/tutorials/notebooks
Submodule notebooks updated 47 files
+0 −0 2_svg_identification.md
+0 −0 2_svgs/svg_iden_within_slice.ipynb
+36 −0 3_alignment.md
+0 −0 3_alignment/3D reconstruction with pairwise alignment.ipynb
+0 −0 3_alignment/Alignment between images.ipynb
+1 −1 3_alignment/Basic usage of Spateo alignment for 2D slices.ipynb
+0 −0 3_alignment/Global refinement by considering multiple slices.ipynb
+0 −0 3_alignment/Incorporate label consistency prior.ipynb
+0 −0 3_alignment/Incorporating mesh information to improve 3D reconstruction.ipynb
+0 −0 3_alignment/Integrate multimodalities data for alignment.ipynb
+1 −5 3_alignment/Nonrigid alignment of Spateo for 2D slices.ipynb
+1 −5 3_alignment/Partial alignment of Spateo for 2D slices.ipynb
+0 −0 3_alignment/Slices Alignment with Morpho.ipynb
+0 −0 3_alignment/Slices Alignment with Paste.ipynb
+0 −0 3_alignment/Using GPU SVI Sparse calculation for efficiency and scalibity.ipynb
+0 −9 4_alignment.md
+0 −0 4_tdr.md
+0 −0 4_tdr/3D Reconstruction.ipynb
+0 −0 4_tdr/Animation.ipynb
+0 −0 4_tdr/Axis&Backbone.ipynb
+0 −0 4_tdr/Interpolations.ipynb
+0 −0 4_tdr/Morpholoy.ipynb
+ 4_tdr/video/E7-9h_completed_model_animation1.mp4
+ 4_tdr/video/E7-9h_completed_model_animation2.mp4
+ 4_tdr/video/E7-9h_merged_completed_model_animation.mp4
+0 −0 5_cluster_digitization.md
+0 −0 5_cluster_digitization/1_bin_scc.ipynb
+0 −0 5_cluster_digitization/2_cellbin_visualize.ipynb
+0 −0 5_cluster_digitization/3_combined_analysis.ipynb
+0 −0 5_cluster_digitization/4_svg_archetype.ipynb
+0 −0 5_cluster_digitization/5_borderline_digitization.ipynb
+0 −0 5_cluster_digitization/6_layer_column_digitization.ipynb
+0 −0 6_cci.md
+0 −0 6_cci/1_cell-cell_communication_inference.ipynb
+0 −0 6_cci/2_cell-cell_interaction_effects_modeling.ipynb
+0 −0 6_cci/Spateo_figure_6.ipynb
+0 −0 6_cci/Spateo_figure_S5.ipynb
+0 −0 6_cci/Spateo_figure_S6.ipynb
+0 −0 7_morphogenesis.md
+0 −0 7_morphogenesis/1_models_alignment.ipynb
+0 −0 7_morphogenesis/2_morphogenesis.ipynb
+0 −0 7_morphogenesis/3_morphogenesis_feature.ipynb
+0 −0 8_interactive.md
+0 −0 8_interactive_tools/1_auxseg_livewire.ipynb
+ 8_interactive_tools/screenshot/1_livewire_demo.png
+ 8_interactive_tools/screenshot/2_straightline_demo.png
+ 8_interactive_tools/screenshot/auxseg_livewire.mp4
2 changes: 1 addition & 1 deletion docs/spateo-tutorials
Submodule spateo-tutorials updated 47 files
+0 −0 2_svg_identification.md
+0 −0 2_svgs/svg_iden_within_slice.ipynb
+36 −0 3_alignment.md
+0 −0 3_alignment/3D reconstruction with pairwise alignment.ipynb
+0 −0 3_alignment/Alignment between images.ipynb
+1 −1 3_alignment/Basic usage of Spateo alignment for 2D slices.ipynb
+0 −0 3_alignment/Global refinement by considering multiple slices.ipynb
+0 −0 3_alignment/Incorporate label consistency prior.ipynb
+0 −0 3_alignment/Incorporating mesh information to improve 3D reconstruction.ipynb
+0 −0 3_alignment/Integrate multimodalities data for alignment.ipynb
+1 −5 3_alignment/Nonrigid alignment of Spateo for 2D slices.ipynb
+1 −5 3_alignment/Partial alignment of Spateo for 2D slices.ipynb
+0 −0 3_alignment/Slices Alignment with Morpho.ipynb
+0 −0 3_alignment/Slices Alignment with Paste.ipynb
+0 −0 3_alignment/Using GPU SVI Sparse calculation for efficiency and scalibity.ipynb
+0 −9 4_alignment.md
+0 −0 4_tdr.md
+0 −0 4_tdr/3D Reconstruction.ipynb
+0 −0 4_tdr/Animation.ipynb
+0 −0 4_tdr/Axis&Backbone.ipynb
+0 −0 4_tdr/Interpolations.ipynb
+0 −0 4_tdr/Morpholoy.ipynb
+ 4_tdr/video/E7-9h_completed_model_animation1.mp4
+ 4_tdr/video/E7-9h_completed_model_animation2.mp4
+ 4_tdr/video/E7-9h_merged_completed_model_animation.mp4
+0 −0 5_cluster_digitization.md
+0 −0 5_cluster_digitization/1_bin_scc.ipynb
+0 −0 5_cluster_digitization/2_cellbin_visualize.ipynb
+0 −0 5_cluster_digitization/3_combined_analysis.ipynb
+0 −0 5_cluster_digitization/4_svg_archetype.ipynb
+0 −0 5_cluster_digitization/5_borderline_digitization.ipynb
+0 −0 5_cluster_digitization/6_layer_column_digitization.ipynb
+0 −0 6_cci.md
+0 −0 6_cci/1_cell-cell_communication_inference.ipynb
+0 −0 6_cci/2_cell-cell_interaction_effects_modeling.ipynb
+0 −0 6_cci/Spateo_figure_6.ipynb
+0 −0 6_cci/Spateo_figure_S5.ipynb
+0 −0 6_cci/Spateo_figure_S6.ipynb
+0 −0 7_morphogenesis.md
+0 −0 7_morphogenesis/1_models_alignment.ipynb
+0 −0 7_morphogenesis/2_morphogenesis.ipynb
+0 −0 7_morphogenesis/3_morphogenesis_feature.ipynb
+0 −0 8_interactive.md
+0 −0 8_interactive_tools/1_auxseg_livewire.ipynb
+ 8_interactive_tools/screenshot/1_livewire_demo.png
+ 8_interactive_tools/screenshot/2_straightline_demo.png
+ 8_interactive_tools/screenshot/auxseg_livewire.mp4
2 changes: 1 addition & 1 deletion docs/tutorials/notebooks
Submodule notebooks updated 47 files
+0 −0 2_svg_identification.md
+0 −0 2_svgs/svg_iden_within_slice.ipynb
+36 −0 3_alignment.md
+0 −0 3_alignment/3D reconstruction with pairwise alignment.ipynb
+0 −0 3_alignment/Alignment between images.ipynb
+1 −1 3_alignment/Basic usage of Spateo alignment for 2D slices.ipynb
+0 −0 3_alignment/Global refinement by considering multiple slices.ipynb
+0 −0 3_alignment/Incorporate label consistency prior.ipynb
+0 −0 3_alignment/Incorporating mesh information to improve 3D reconstruction.ipynb
+0 −0 3_alignment/Integrate multimodalities data for alignment.ipynb
+1 −5 3_alignment/Nonrigid alignment of Spateo for 2D slices.ipynb
+1 −5 3_alignment/Partial alignment of Spateo for 2D slices.ipynb
+0 −0 3_alignment/Slices Alignment with Morpho.ipynb
+0 −0 3_alignment/Slices Alignment with Paste.ipynb
+0 −0 3_alignment/Using GPU SVI Sparse calculation for efficiency and scalibity.ipynb
+0 −9 4_alignment.md
+0 −0 4_tdr.md
+0 −0 4_tdr/3D Reconstruction.ipynb
+0 −0 4_tdr/Animation.ipynb
+0 −0 4_tdr/Axis&Backbone.ipynb
+0 −0 4_tdr/Interpolations.ipynb
+0 −0 4_tdr/Morpholoy.ipynb
+ 4_tdr/video/E7-9h_completed_model_animation1.mp4
+ 4_tdr/video/E7-9h_completed_model_animation2.mp4
+ 4_tdr/video/E7-9h_merged_completed_model_animation.mp4
+0 −0 5_cluster_digitization.md
+0 −0 5_cluster_digitization/1_bin_scc.ipynb
+0 −0 5_cluster_digitization/2_cellbin_visualize.ipynb
+0 −0 5_cluster_digitization/3_combined_analysis.ipynb
+0 −0 5_cluster_digitization/4_svg_archetype.ipynb
+0 −0 5_cluster_digitization/5_borderline_digitization.ipynb
+0 −0 5_cluster_digitization/6_layer_column_digitization.ipynb
+0 −0 6_cci.md
+0 −0 6_cci/1_cell-cell_communication_inference.ipynb
+0 −0 6_cci/2_cell-cell_interaction_effects_modeling.ipynb
+0 −0 6_cci/Spateo_figure_6.ipynb
+0 −0 6_cci/Spateo_figure_S5.ipynb
+0 −0 6_cci/Spateo_figure_S6.ipynb
+0 −0 7_morphogenesis.md
+0 −0 7_morphogenesis/1_models_alignment.ipynb
+0 −0 7_morphogenesis/2_morphogenesis.ipynb
+0 −0 7_morphogenesis/3_morphogenesis_feature.ipynb
+0 −0 8_interactive.md
+0 −0 8_interactive_tools/1_auxseg_livewire.ipynb
+ 8_interactive_tools/screenshot/1_livewire_demo.png
+ 8_interactive_tools/screenshot/2_straightline_demo.png
+ 8_interactive_tools/screenshot/auxseg_livewire.mp4

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