LICENSE
README.md
pyproject.toml
setup.cfg
setup.py
spateo/__init__.py
spateo/align.py
spateo/configuration.py
spateo/cs.py
spateo/data_io.py
spateo/dd.py
spateo/errors.py
spateo/get_version.py
spateo/logging.py
spateo/pl.py
spateo/pp.py
spateo/sample_data.py
spateo/svg.py
spateo/tdr.py
spateo/tl.py
spateo/utils.py
spateo/warnings.py
spateo/alignment/__init__.py
spateo/alignment/deformation.py
spateo/alignment/morpho_alignment.py
spateo/alignment/paste_alignment.py
spateo/alignment/transform.py
spateo/alignment/utils.py
spateo/alignment/methods/__init__.py
spateo/alignment/methods/backend.py
spateo/alignment/methods/backend_ot.py
spateo/alignment/methods/deprecated_morpho.py
spateo/alignment/methods/deprecated_morpho_sparse.py
spateo/alignment/methods/deprecated_morpho_sparse_utils.py
spateo/alignment/methods/deprecated_utils.py
spateo/alignment/methods/mesh_correction_utils.py
spateo/alignment/methods/morpho_class.py
spateo/alignment/methods/morpho_mesh_correction.py
spateo/alignment/methods/paste.py
spateo/alignment/methods/sampling.py
spateo/alignment/methods/utils.py
spateo/digitization/__init__.py
spateo/digitization/borderline.py
spateo/digitization/boundary_old.py
spateo/digitization/contour.py
spateo/digitization/grid.py
spateo/digitization/utils.py
spateo/digitization/utils_old.py
spateo/external/__init__.py
spateo/external/lack.py
spateo/external/CAST/CAST_Mark.py
spateo/external/CAST/CAST_Projection.py
spateo/external/CAST/CAST_Stack.py
spateo/external/CAST/__init__.py
spateo/external/CAST/main.py
spateo/external/CAST/utils.py
spateo/external/CAST/visualize.py
spateo/external/CAST/model/__init__.py
spateo/external/CAST/model/aug.py
spateo/external/CAST/model/model_GCNII.py
spateo/external/STAGATE_pyG/STAGATE.py
spateo/external/STAGATE_pyG/Train_STAGATE.py
spateo/external/STAGATE_pyG/__init__.py
spateo/external/STAGATE_pyG/gat_conv.py
spateo/external/STAGATE_pyG/utils.py
spateo/io/__init__.py
spateo/io/bbs.py
spateo/io/bgi.py
spateo/io/image.py
spateo/io/image_utils.py
spateo/io/merfish.py
spateo/io/nanostring.py
spateo/io/seqfish.py
spateo/io/seqscope.py
spateo/io/slideseq.py
spateo/io/starmap.py
spateo/io/tenx.py
spateo/io/utils.py
spateo/plotting/__init__.py
spateo/plotting/interactive/__init__.py
spateo/plotting/interactive/agg.py
spateo/plotting/static/__init__.py
spateo/plotting/static/agg.py
spateo/plotting/static/align.py
spateo/plotting/static/bbs.py
spateo/plotting/static/colorlabel.py
spateo/plotting/static/contour.py
spateo/plotting/static/dotplot.py
spateo/plotting/static/geo.py
spateo/plotting/static/glm.py
spateo/plotting/static/interactions.py
spateo/plotting/static/lisa.py
spateo/plotting/static/networks.py
spateo/plotting/static/polarity.py
spateo/plotting/static/position.py
spateo/plotting/static/scatters.py
spateo/plotting/static/space.py
spateo/plotting/static/utils.py
spateo/plotting/static/three_d_plot/__init__.py
spateo/plotting/static/three_d_plot/align_plots.py
spateo/plotting/static/three_d_plot/backbone_plots.py
spateo/plotting/static/three_d_plot/morphometrics_plots.py
spateo/plotting/static/three_d_plot/pairwise_align_plots.py
spateo/plotting/static/three_d_plot/three_dims_plots.py
spateo/plotting/static/three_d_plot/three_dims_plotter.py
spateo/preprocessing/__init__.py
spateo/preprocessing/_fast_utils.py
spateo/preprocessing/aggregate.py
spateo/preprocessing/auxseg.py
spateo/preprocessing/filter.py
spateo/preprocessing/image.py
spateo/preprocessing/normalize.py
spateo/preprocessing/transform.py
spateo/segmentation/__init__.py
spateo/segmentation/align.py
spateo/segmentation/benchmark.py
spateo/segmentation/bp.py
spateo/segmentation/density.py
spateo/segmentation/em.py
spateo/segmentation/icell.py
spateo/segmentation/label.py
spateo/segmentation/moran.py
spateo/segmentation/qc.py
spateo/segmentation/simulation.py
spateo/segmentation/utils.py
spateo/segmentation/vi.py
spateo/segmentation/external/__init__.py
spateo/segmentation/external/cellpose.py
spateo/segmentation/external/deepcell.py
spateo/segmentation/external/stardist.py
spateo/segmentation/simulation_evaluation/__init__.py
spateo/segmentation/simulation_evaluation/allocate_cell.py
spateo/segmentation/simulation_evaluation/evaluation.py
spateo/segmentation/simulation_evaluation/prepare.py
spateo/svg/__init__.py
spateo/svg/get_svg.py
spateo/svg/get_svg_between_slice.py
spateo/svg/utils.py
spateo/tdr/__init__.py
spateo/tdr/interpolations/__init__.py
spateo/tdr/interpolations/interpolation_dl.py
spateo/tdr/interpolations/interpolation_gp.py
spateo/tdr/interpolations/interpolation_sparseVFC.py
spateo/tdr/interpolations/interpolation_vtk.py
spateo/tdr/interpolations/utils.py
spateo/tdr/interpolations/interpolation_deeplearn/__init__.py
spateo/tdr/interpolations/interpolation_deeplearn/deep_interpolation.py
spateo/tdr/interpolations/interpolation_deeplearn/interpolation_nn.py
spateo/tdr/interpolations/interpolation_deeplearn/nn_losses.py
spateo/tdr/interpolations/interpolation_gaussianprocess/__init__.py
spateo/tdr/interpolations/interpolation_gaussianprocess/gp_models.py
spateo/tdr/interpolations/interpolation_gaussianprocess/gp_train.py
spateo/tdr/models/__init__.py
spateo/tdr/models/models_backbone/__init__.py
spateo/tdr/models/models_backbone/backbone.py
spateo/tdr/models/models_backbone/backbone_methods.py
spateo/tdr/models/models_backbone/backbone_utils.py
spateo/tdr/models/models_individual/__init__.py
spateo/tdr/models/models_individual/mesh.py
spateo/tdr/models/models_individual/mesh_methods.py
spateo/tdr/models/models_individual/mesh_utils.py
spateo/tdr/models/models_individual/point_clouds.py
spateo/tdr/models/models_individual/voxel.py
spateo/tdr/models/models_migration/__init__.py
spateo/tdr/models/models_migration/arrow_model.py
spateo/tdr/models/models_migration/line_model.py
spateo/tdr/models/models_migration/morphofield_model.py
spateo/tdr/models/models_migration/morphopath_model.py
spateo/tdr/models/utilities/__init__.py
spateo/tdr/models/utilities/io.py
spateo/tdr/models/utilities/label_utils.py
spateo/tdr/models/utilities/model_utils.py
spateo/tdr/morphometrics/__init__.py
spateo/tdr/morphometrics/gene_similarity.py
spateo/tdr/morphometrics/morphology.py
spateo/tdr/morphometrics/shape_similarity.py
spateo/tdr/morphometrics/morphofield/__init__.py
spateo/tdr/morphometrics/morphofield/gaussian_process.py
spateo/tdr/morphometrics/morphofield/sparsevfc.py
spateo/tdr/morphometrics/morphofield/trajectory.py
spateo/tdr/morphometrics/morphofield_dg/GPVectorField.py
spateo/tdr/morphometrics/morphofield_dg/__init__.py
spateo/tdr/morphometrics/morphofield_dg/differential_geometry.py
spateo/tdr/widgets/__init__.py
spateo/tdr/widgets/clip.py
spateo/tdr/widgets/pick.py
spateo/tdr/widgets/slice.py
spateo/tdr/widgets/utils.py
spateo/tools/__init__.py
spateo/tools/architype.py
spateo/tools/cci_fdr.py
spateo/tools/cci_two_cluster.py
spateo/tools/cell_communication.py
spateo/tools/cluster_degs.py
spateo/tools/cluster_lasso.py
spateo/tools/coarse_align.py
spateo/tools/dimensionality_reduction.py
spateo/tools/find_neighbors.py
spateo/tools/gene_expression_variance.py
spateo/tools/glm.py
spateo/tools/labels.py
spateo/tools/lisa.py
spateo/tools/live_wire.py
spateo/tools/roi.py
spateo/tools/spatial_degs.py
spateo/tools/spatial_smooth.py
spateo/tools/spatially_variable_gene_ot.py
spateo/tools/utils.py
spateo/tools/CCI_effects_modeling/MuSIC.py
spateo/tools/CCI_effects_modeling/MuSIC_downstream.py
spateo/tools/CCI_effects_modeling/MuSIC_upstream.py
spateo/tools/CCI_effects_modeling/SWR.py
spateo/tools/CCI_effects_modeling/__init__.py
spateo/tools/CCI_effects_modeling/distributions.py
spateo/tools/CCI_effects_modeling/regression_utils.py
spateo/tools/cluster/__init__.py
spateo/tools/cluster/_stagate.py
spateo/tools/cluster/cluster_spagcn.py
spateo/tools/cluster/find_clusters.py
spateo/tools/cluster/leiden.py
spateo/tools/cluster/spagcn_utils.py
spateo/tools/cluster/utils.py
spateo_release.egg-info/PKG-INFO
spateo_release.egg-info/SOURCES.txt
spateo_release.egg-info/dependency_links.txt
spateo_release.egg-info/requires.txt
spateo_release.egg-info/top_level.txt
tests/test_configuration.py
tests/io/__init__.py
tests/io/test_bgi.py
tests/io/test_image.py
tests/io/test_utils.py
tests/preprocessing/__init__.py
tests/preprocessing/test_filter.py
tests/preprocessing/test_image.py
tests/segmentation/__init__.py
tests/segmentation/test_align.py
tests/segmentation/test_bp.py
tests/segmentation/test_density.py
tests/segmentation/test_em.py
tests/segmentation/test_icell.py
tests/segmentation/test_label.py
tests/segmentation/test_utils.py
tests/tools/__init__.py