LICENSE
README.md
pyproject.toml
requirements.txt
src/sampledisco/__init__.py
src/sampledisco/cli.py
src/sampledisco.egg-info/PKG-INFO
src/sampledisco.egg-info/SOURCES.txt
src/sampledisco.egg-info/dependency_links.txt
src/sampledisco.egg-info/entry_points.txt
src/sampledisco.egg-info/requires.txt
src/sampledisco.egg-info/top_level.txt
src/sampledisco/config/config_demo.yaml
src/sampledisco/gene_activity/ATAC_ArchR.py
src/sampledisco/gene_activity/ATAC_RNA_harmony.py
src/sampledisco/gene_activity/ATAC_gene_activity.py
src/sampledisco/gene_activity/ATAC_peak_annotation.py
src/sampledisco/gene_activity/RNA_name_convertor.py
src/sampledisco/gene_activity/__init__.py
src/sampledisco/gene_activity/pseudo_correlation.py
src/sampledisco/gene_activity/test_pseudo_correlation.py
src/sampledisco/gene_activity/validation.py
src/sampledisco/parameter_selection/__init__.py
src/sampledisco/parameter_selection/autotune.py
src/sampledisco/preparation/ATAC_cell_type.py
src/sampledisco/preparation/ATAC_cell_type_gpu.py
src/sampledisco/preparation/__init__.py
src/sampledisco/preparation/atac_preprocess_cpu.py
src/sampledisco/preparation/atac_preprocess_gpu.py
src/sampledisco/preparation/cell_type_cpu.py
src/sampledisco/preparation/cell_type_gpu.py
src/sampledisco/preparation/multi_omics_batch_correction.py
src/sampledisco/preparation/multi_omics_cell_type_cpu.py
src/sampledisco/preparation/multi_omics_cell_type_gpu.py
src/sampledisco/preparation/multi_omics_glue.py
src/sampledisco/preparation/multi_omics_merge.py
src/sampledisco/preparation/rna_preprocess_cpu.py
src/sampledisco/preparation/rna_preprocess_gpu.py
src/sampledisco/sample_association/__init__.py
src/sampledisco/sample_association/association.py
src/sampledisco/sample_clustering/RAISIN.py
src/sampledisco/sample_clustering/RAISIN_TEST.py
src/sampledisco/sample_clustering/__init__.py
src/sampledisco/sample_clustering/cluster.py
src/sampledisco/sample_clustering/cluster_severity_reconcile.py
src/sampledisco/sample_clustering/proportion_test.py
src/sampledisco/sample_distance/ChiSquare.py
src/sampledisco/sample_distance/__init__.py
src/sampledisco/sample_distance/distance_test.py
src/sampledisco/sample_distance/jensenshannon.py
src/sampledisco/sample_distance/sample_distance.py
src/sampledisco/sample_embedding/__init__.py
src/sampledisco/sample_embedding/blocks.py
src/sampledisco/sample_embedding/sample_embedding.py
src/sampledisco/sample_embedding/sample_embedding_gpu.py
src/sampledisco/sample_trajectory/CCA.py
src/sampledisco/sample_trajectory/CCA_test.py
src/sampledisco/sample_trajectory/TSCAN.py
src/sampledisco/sample_trajectory/__init__.py
src/sampledisco/sample_trajectory/trajectory_DGE_visualization.py
src/sampledisco/sample_trajectory/trajectory_diff_gene.py
src/sampledisco/utils/Grouping.py
src/sampledisco/utils/__init__.py
src/sampledisco/utils/batch_regress.py
src/sampledisco/utils/harmony_compat.py
src/sampledisco/utils/imbalance_cell_type_handler.py
src/sampledisco/utils/inspector.py
src/sampledisco/utils/limma.py
src/sampledisco/utils/merge_sample_meta.py
src/sampledisco/utils/random_seed.py
src/sampledisco/utils/safe_save.py
src/sampledisco/utils/slim_adata.py
src/sampledisco/utils/subsample.py
src/sampledisco/utils/subsample_generator.py
src/sampledisco/utils/tf_idf.py
src/sampledisco/utils/unify_optimal.py
src/sampledisco/visualization/ATAC_visualization.py
src/sampledisco/visualization/DEG_visualization.py
src/sampledisco/visualization/__init__.py
src/sampledisco/visualization/multi_omics_visualization.py
src/sampledisco/visualization/visualization_embedding.py
src/sampledisco/visualization/visualization_helper.py
src/sampledisco/visualization/visualization_other.py
src/sampledisco/wrapper/__init__.py
src/sampledisco/wrapper/atac_wrapper.py
src/sampledisco/wrapper/multiomics_wrapper.py
src/sampledisco/wrapper/rna_wrapper.py
src/sampledisco/wrapper/wrapper.py