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ALLCools.pseudo_cell.pseudo_cell_knn

ALLCools.pseudo_cell.pseudo_cell_knn

Module Contents

class ContractedExamplerSampler(data, n_components=30, normalize=False)[source]
_sample_pulp_dist(self, n_kernels, pulp_size)[source]
_select_dist_thresh(self, pulp_size, n_tests=100, pulp_thicken_ratio=1.2, robust_quantile=0.9)[source]
_sample_fruit(self, n_kernels, pulp_size, max_iters, dist_thresh=None, ovlp_tol=0.2, min_pulp_size=None, k=100)[source]
sample_contracted_examplers(self, n_examplers, n_neighbors, min_n_neighbors=None, ovlp_tol=0, dist_thresh=None, max_iters=100)[source]
sample_pseudo_cells(cell_meta, cluster_col, coords, target_pseudo_size, min_pseudo_size=None, ignore_small_cluster=False, n_components=30, pseudo_ovlp=0)[source]
generate_pseudo_cells(adata, cluster_col='leiden', obsm='X_pca', target_pseudo_size=100, min_pseudo_size=None, ignore_small_cluster=False, n_components=None, aggregate_func='downsample', pseudo_ovlp=0)[source]

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