Index C | D | E | F | G | H | I | K | M | O | P | R | S | T | W C calculate_cell_qc_metrics() (in module patpy.pp) calculate_compositional_metrics() (in module patpy.pp) calculate_distance_matrix() (patpy.tl.CellGroupComposition method) (patpy.tl.DiffusionEarthMoverDistance method) (patpy.tl.GloScope method) (patpy.tl.GloScope_py method) (patpy.tl.GroupedPseudobulk method) (patpy.tl.MOFA method) (patpy.tl.MrVI method) (patpy.tl.PILOT method) (patpy.tl.PILOTGMVAE method) (patpy.tl.Pseudobulk method) (patpy.tl.RandomVector method) (patpy.tl.SampleRepresentationMethod method) (patpy.tl.SCPoli method) (patpy.tl.WassersteinTSNE method) calculate_distance_matrix_cuml() (patpy.tl.GloScope_py method) calculate_distance_matrix_pynndescent() (patpy.tl.GloScope_py method) calculate_n_cells_per_sample() (in module patpy.pp) CellGroupComposition (class in patpy.tl) combat() (in module patpy.datasets) convert_cell_types_to_phemd_format() (in module patpy.pp) D describe_metadata() (in module patpy.tl) DiffusionEarthMoverDistance (class in patpy.tl) E early_stopping_kwargs (patpy.tl.SCPoli attribute) embed() (patpy.tl.CellGroupComposition method) (patpy.tl.DiffusionEarthMoverDistance method) (patpy.tl.GloScope method) (patpy.tl.GloScope_py method) (patpy.tl.GroupedPseudobulk method) (patpy.tl.MOFA method) (patpy.tl.MrVI method) (patpy.tl.PILOT method) (patpy.tl.PILOTGMVAE method) (patpy.tl.Pseudobulk method) (patpy.tl.RandomVector method) (patpy.tl.SampleRepresentationMethod method) (patpy.tl.SCPoli method) (patpy.tl.WassersteinTSNE method) evaluate_prediction() (in module patpy.tl) evaluate_representation() (in module patpy.tl) (patpy.tl.CellGroupComposition method) (patpy.tl.DiffusionEarthMoverDistance method) (patpy.tl.GloScope method) (patpy.tl.GloScope_py method) (patpy.tl.GroupedPseudobulk method) (patpy.tl.MOFA method) (patpy.tl.MrVI method) (patpy.tl.PILOT method) (patpy.tl.PILOTGMVAE method) (patpy.tl.Pseudobulk method) (patpy.tl.RandomVector method) (patpy.tl.SampleRepresentationMethod method) (patpy.tl.SCPoli method) (patpy.tl.WassersteinTSNE method) F fill_nan_distances() (in module patpy.pp) filter_small_cell_groups() (in module patpy.pp) filter_small_samples() (in module patpy.pp) fit_linear_probe() (patpy.tl.CellGroupComposition method) (patpy.tl.DiffusionEarthMoverDistance method) (patpy.tl.GloScope method) (patpy.tl.GloScope_py method) (patpy.tl.GroupedPseudobulk method) (patpy.tl.MOFA method) (patpy.tl.MrVI method) (patpy.tl.PILOT method) (patpy.tl.PILOTGMVAE method) (patpy.tl.Pseudobulk method) (patpy.tl.RandomVector method) (patpy.tl.SampleRepresentationMethod method) (patpy.tl.SCPoli method) (patpy.tl.WassersteinTSNE method) G GloScope (class in patpy.tl) GloScope_py (class in patpy.tl) GroupedPseudobulk (class in patpy.tl) H hlca() (in module patpy.datasets) I is_count_data() (in module patpy.pp) K kl_divergence() (patpy.tl.GloScope_py static method) M module patpy.datasets patpy.pl patpy.pp patpy.tl MOFA (class in patpy.tl) MrVI (class in patpy.tl) O onek1k() (in module patpy.datasets) P patpy.datasets module patpy.pl module patpy.pp module patpy.tl module PILOT (class in patpy.tl) PILOTGMVAE (class in patpy.tl) plot_clustermap() (patpy.tl.CellGroupComposition method) (patpy.tl.DiffusionEarthMoverDistance method) (patpy.tl.GloScope method) (patpy.tl.GloScope_py method) (patpy.tl.GroupedPseudobulk method) (patpy.tl.MOFA method) (patpy.tl.MrVI method) (patpy.tl.PILOT method) (patpy.tl.PILOTGMVAE method) (patpy.tl.Pseudobulk method) (patpy.tl.RandomVector method) (patpy.tl.SampleRepresentationMethod method) (patpy.tl.SCPoli method) (patpy.tl.WassersteinTSNE method) plot_embedding() (patpy.tl.CellGroupComposition method) (patpy.tl.DiffusionEarthMoverDistance method) (patpy.tl.GloScope method) (patpy.tl.GloScope_py method) (patpy.tl.GroupedPseudobulk method) (patpy.tl.MOFA method) (patpy.tl.MrVI method) (patpy.tl.PILOT method) (patpy.tl.PILOTGMVAE method) (patpy.tl.Pseudobulk method) (patpy.tl.RandomVector method) (patpy.tl.SampleRepresentationMethod method) (patpy.tl.SCPoli method) (patpy.tl.WassersteinTSNE method) plot_metadata_distribution() (patpy.tl.CellGroupComposition method) (patpy.tl.DiffusionEarthMoverDistance method) (patpy.tl.GloScope method) (patpy.tl.GloScope_py method) (patpy.tl.GroupedPseudobulk method) (patpy.tl.MOFA method) (patpy.tl.MrVI method) (patpy.tl.PILOT method) (patpy.tl.PILOTGMVAE method) (patpy.tl.Pseudobulk method) (patpy.tl.RandomVector method) (patpy.tl.SampleRepresentationMethod method) (patpy.tl.SCPoli method) (patpy.tl.WassersteinTSNE method) predict_knn() (in module patpy.tl) predict_metadata() (patpy.tl.CellGroupComposition method) (patpy.tl.DiffusionEarthMoverDistance method) (patpy.tl.GloScope method) (patpy.tl.GloScope_py method) (patpy.tl.GroupedPseudobulk method) (patpy.tl.MOFA method) (patpy.tl.MrVI method) (patpy.tl.PILOT method) (patpy.tl.PILOTGMVAE method) (patpy.tl.Pseudobulk method) (patpy.tl.RandomVector method) (patpy.tl.SampleRepresentationMethod method) (patpy.tl.SCPoli method) (patpy.tl.WassersteinTSNE method) prepare_anndata() (patpy.tl.CellGroupComposition method) (patpy.tl.DiffusionEarthMoverDistance method) (patpy.tl.GloScope method) (patpy.tl.GloScope_py method) (patpy.tl.GroupedPseudobulk method) (patpy.tl.MOFA method) (patpy.tl.MrVI method) (patpy.tl.PILOT method) (patpy.tl.PILOTGMVAE method) (patpy.tl.Pseudobulk method) (patpy.tl.RandomVector method) (patpy.tl.SampleRepresentationMethod method) (patpy.tl.SCPoli method) (patpy.tl.WassersteinTSNE method) prepare_data_for_phemd() (in module patpy.pp) Pseudobulk (class in patpy.tl) R RandomVector (class in patpy.tl) S SampleRepresentationMethod (class in patpy.tl) SCPoli (class in patpy.tl) stephenson() (in module patpy.datasets) subsample() (in module patpy.pp) T test_distances_significance() (in module patpy.tl) test_proportions() (in module patpy.tl) ticatlas() (in module patpy.datasets) to_adata() (patpy.tl.CellGroupComposition method) (patpy.tl.DiffusionEarthMoverDistance method) (patpy.tl.GloScope method) (patpy.tl.GloScope_py method) (patpy.tl.GroupedPseudobulk method) (patpy.tl.MOFA method) (patpy.tl.MrVI method) (patpy.tl.PILOT method) (patpy.tl.PILOTGMVAE method) (patpy.tl.Pseudobulk method) (patpy.tl.RandomVector method) (patpy.tl.SampleRepresentationMethod method) (patpy.tl.SCPoli method) (patpy.tl.WassersteinTSNE method) W WassersteinTSNE (class in patpy.tl)
