Index A | C | D | E | F | G | K | L | M | N | P | R | S | T | X A add_ratio_layer() (in module splisosm.utils.preprocessing) auto_chunk_size() (in module splisosm.utils.preprocessing) C compute_feature_summaries() (in module splisosm.utils.preprocessing) counts_to_ratios() (in module splisosm.utils.preprocessing) D DenseKernelOp (class in splisosm.gpr) E eigenvalues() (splisosm.gpr.DenseKernelOp method) (splisosm.gpr.FFTKernelOp method) (splisosm.gpr.NUFFTKernelOp method) (splisosm.gpr.SpatialKernelOp method) (splisosm.kernel.FFTKernel method) extract_feature_summary() (splisosm.SplisosmFFT method) (splisosm.SplisosmGLMM method) (splisosm.SplisosmNP method) F false_discovery_control() (in module splisosm.utils.stats) FFTKernel (class in splisosm.kernel) FFTKernelGPR (class in splisosm.gpr) FFTKernelOp (class in splisosm.gpr) filtered_adata (splisosm.SplisosmGLMM property) (splisosm.SplisosmNP property) fit() (splisosm.glmm.MultinomGLM method) (splisosm.glmm.MultinomGLMM method) (splisosm.SplisosmGLMM method) fit_residuals() (splisosm.gpr.FFTKernelGPR method) (splisosm.gpr.GPyTorchKernelGPR method) (splisosm.gpr.KernelGPR method) (splisosm.gpr.NUFFTKernelGPR method) (splisosm.gpr.SklearnKernelGPR method) fit_residuals_batch() (splisosm.gpr.FFTKernelGPR method) (splisosm.gpr.KernelGPR method) (splisosm.gpr.NUFFTKernelGPR method) (splisosm.gpr.SklearnKernelGPR method) fit_residuals_cube() (splisosm.gpr.FFTKernelGPR method) forward() (splisosm.glmm.MultinomGLM method) (splisosm.glmm.MultinomGLMM method) from_config() (splisosm.gpr.SklearnKernelGPR class method) from_coordinates() (splisosm.kernel.SpatialCovKernel class method) G get_fitted_models() (splisosm.SplisosmGLMM method) get_fitted_ratios_anndata() (splisosm.SplisosmGLMM method) get_formatted_test_results() (splisosm.SplisosmFFT method) (splisosm.SplisosmGLMM method) (splisosm.SplisosmNP method) get_gene_model() (splisosm.SplisosmGLMM method) get_isoform_ratio() (splisosm.glmm.MultinomGLM method) (splisosm.glmm.MultinomGLMM method) get_kernel_op() (splisosm.gpr.FFTKernelGPR method) (splisosm.gpr.KernelGPR method) (splisosm.gpr.NUFFTKernelGPR method) (splisosm.gpr.SklearnKernelGPR method) get_training_summary() (splisosm.SplisosmGLMM method) GPyTorchKernelGPR (class in splisosm.gpr) K KernelGPR (class in splisosm.gpr) Kx() (splisosm.kernel.FFTKernel method) (splisosm.kernel.SpatialCovKernel method) L linear_hsic_test() (in module splisosm.utils.hsic) liu_sf() (in module splisosm.utils.hsic) liu_sf_from_cumulants() (in module splisosm.utils.hsic) load() (splisosm.SplisosmGLMM static method) load_visium_probe() (in module splisosm.io) load_visium_sp_meta() (in module splisosm.io) load_visiumhd_probe() (in module splisosm.io) load_xenium_codeword() (in module splisosm.io) M make_kernel_gpr() (in module splisosm.gpr) matvec() (splisosm.gpr.DenseKernelOp method) (splisosm.gpr.FFTKernelOp method) (splisosm.gpr.NUFFTKernelOp method) (splisosm.gpr.SpatialKernelOp method) MultinomGLM (class in splisosm.glmm) MultinomGLMM (class in splisosm.glmm) N NUFFTKernelGPR (class in splisosm.gpr) NUFFTKernelOp (class in splisosm.gpr) P precompute_shared_kernel() (splisosm.gpr.SklearnKernelGPR method) prepare_inputs_from_anndata() (in module splisosm.utils.preprocessing) R realization() (splisosm.kernel.SpatialCovKernel method) residuals() (splisosm.gpr.DenseKernelOp method) (splisosm.gpr.FFTKernelOp method) (splisosm.gpr.NUFFTKernelOp method) (splisosm.gpr.SpatialKernelOp method) run_hsic_gc() (in module splisosm.utils.stats) run_sparkx() (in module splisosm.utils.stats) S save() (splisosm.SplisosmGLMM method) setup_data() (splisosm.glmm.MultinomGLM method) (splisosm.glmm.MultinomGLMM method) (splisosm.SplisosmFFT method) (splisosm.SplisosmGLMM method) (splisosm.SplisosmNP method) simulate_isoform_counts() (in module splisosm.utils.simulation) simulate_isoform_counts_single_gene() (in module splisosm.utils.simulation) SklearnKernelGPR (class in splisosm.gpr) solve() (splisosm.gpr.DenseKernelOp method) (splisosm.gpr.FFTKernelOp method) (splisosm.gpr.NUFFTKernelOp method) (splisosm.gpr.SpatialKernelOp method) SpatialCovKernel (class in splisosm.kernel) SpatialKernelOp (class in splisosm.gpr) SplisosmFFT (class in splisosm) SplisosmGLMM (class in splisosm) SplisosmNP (class in splisosm) square_trace() (splisosm.gpr.FFTKernelOp method) (splisosm.gpr.NUFFTKernelOp method) (splisosm.gpr.SpatialKernelOp method) (splisosm.kernel.FFTKernel method) (splisosm.kernel.SpatialCovKernel method) T test_differential_usage() (splisosm.SplisosmFFT method) (splisosm.SplisosmGLMM method) (splisosm.SplisosmNP method) test_spatial_variability() (splisosm.SplisosmFFT method) (splisosm.SplisosmGLMM method) (splisosm.SplisosmNP method) trace() (splisosm.gpr.FFTKernelOp method) (splisosm.gpr.NUFFTKernelOp method) (splisosm.gpr.SpatialKernelOp method) (splisosm.kernel.FFTKernel method) (splisosm.kernel.SpatialCovKernel method) X xtKx() (splisosm.kernel.FFTKernel method) (splisosm.kernel.SpatialCovKernel method) xtKx_exact() (splisosm.kernel.SpatialCovKernel method)