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__init__.py
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__init__.py
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from .architype import (
archetypes,
archetypes_genes,
find_spatial_archetypes,
find_spatially_related_genes,
get_genes_from_spatial_archetype,
)
from .cci_two_cluster import find_cci_two_group
from .cell_communication import niches, predict_ligand_activities, predict_target_genes
from .cluster import *
from .cluster.find_clusters import scc, spagcn_pyg
from .cluster_degs import (
find_all_cluster_degs,
find_cluster_degs,
find_spatial_cluster_degs,
top_n_degs,
)
from .cluster_lasso import *
from .coarse_align import AffineTrans, align_slices_pca, pca_align, procrustes
from .find_neighbors import weighted_spatial_graph
from .glm import glm_degs
# from .image import add_image_layer
# from .interpolation_utils import *
from .labels import Label, create_label_class
from .lisa import GM_lag_model, lisa_geo_df, local_moran_i
from .live_wire import LiveWireSegmentation, compute_shortest_path, live_wire
from .paste import (
center_align,
generalized_procrustes_analysis,
mapping_aligned_coords,
mapping_center_coords,
pairwise_align,
)
from .spatial_degs import moran_i
from .spatial_impute import *
from .spatial_impute.impute import STGNN
from .spatial_impute.run_impute import run_denoise_impute
from .ST_regression import *
from .ST_regression.generalized_lm import fit_glm
from .ST_regression.regression_utils import plot_prior_vs_data
from .ST_regression.spatial_regression import (
Category_Model,
Ligand_Lagged_Model,
Niche_LR_Model,
Niche_Model,
)
from .three_dims_align import (
get_align_labels,
models_align,
models_align_ref,
models_center_align,
models_center_align_ref,
rigid_transform_2D,
rigid_transform_3D,
)