README.md
setup.py
asappy/__init__.py
asappy/asappy.py
asappy.egg-info/PKG-INFO
asappy.egg-info/SOURCES.txt
asappy.egg-info/dependency_links.txt
asappy.egg-info/not-zip-safe
asappy.egg-info/top_level.txt
asappy/clustering/__init__.py
asappy/clustering/leiden.py
asappy/dutil/__init__.py
asappy/dutil/dataloader.py
asappy/dutil/read_write.py
asappy/factorization/__init__.py
asappy/factorization/pnmf.py
asappy/plotting/__init__.py
asappy/plotting/palette.py
asappy/plotting/plots.py
asappy/preprocessing/__init__.py
asappy/preprocessing/hvgenes.py
asappy/preprocessing/initialize.py
asappy/preprocessing/normalize.py
asappy/projection/__init__.py
asappy/projection/pseudobulk.py
asappy/projection/rpstruct.py
asappy/util/__init__.py
asappy/util/_lina.py
asappy/util/_scanpy.py
asappy/util/analysis.py
asappy/util/logging.py
asappy/util/sim.py
asappy/util/sim_fullcopula.py
asappy/util/sim_v1.py
pyliger/__init__.py
pyliger/_utilities.py
pyliger/logging.py
pyliger/pyliger.py
pyliger/read_write.py
pyliger/clustering/__init__.py
pyliger/clustering/_leiden.py
pyliger/clustering/_louvain.py
pyliger/clustering/_utilities.py
pyliger/factorization/__init__.py
pyliger/factorization/_iNMF_ANLS.py
pyliger/factorization/_iNMF_HALS.py
pyliger/factorization/_online_iNMF.py
pyliger/factorization/_utilities.py
pyliger/plotting/__init__.py
pyliger/plotting/_dataset_cluster.py
pyliger/plotting/_gene.py
pyliger/plotting/_gene_loadings.py
pyliger/plotting/_go.py
pyliger/plotting/_spatial.py
pyliger/plotting/_utilities.py
pyliger/preprocessing/__init__.py
pyliger/preprocessing/_cal_feature.py
pyliger/preprocessing/_initialization.py
pyliger/preprocessing/_normalization.py
pyliger/preprocessing/_qc.py
pyliger/preprocessing/_scale.py
pyliger/preprocessing/_select_genes.py
pyliger/tools/__init__.py
pyliger/tools/_go.py
pyliger/tools/_marker.py
pyliger/tools/_metrics.py
pyliger/tools/_quantile_norm.py
pyliger/tools/_umap.py
pyliger/tools/_wilcoxon.py
tests/test_cpp.py
tests/test_cpp_module.py
tests/test_pmf.py