LICENSE
MANIFEST.in
README.rst
setup.cfg
setup.py
versioneer.py
scCloud/_version.py
sccloud/__init__.py
sccloud/__main__.py
sccloud/_version.py
sccloud.egg-info/PKG-INFO
sccloud.egg-info/SOURCES.txt
sccloud.egg-info/dependency_links.txt
sccloud.egg-info/entry_points.txt
sccloud.egg-info/requires.txt
sccloud.egg-info/top_level.txt
sccloud/annotate_cluster/__init__.py
sccloud/annotate_cluster/annotate_cluster.py
sccloud/annotate_cluster/human_brain_cell_markers.json
sccloud/annotate_cluster/human_immune_cell_markers.json
sccloud/annotate_cluster/mouse_brain_cell_markers.json
sccloud/annotate_cluster/mouse_immune_cell_markers.json
sccloud/check_sample_indexes/__init__.py
sccloud/check_sample_indexes/check_sample_indexes.py
sccloud/cite_seq/__init__.py
sccloud/cite_seq/cite_seq.py
sccloud/commands/AggregateMatrix.py
sccloud/commands/AnnotateCluster.py
sccloud/commands/Base.py
sccloud/commands/CITESeq.py
sccloud/commands/CheckSampleIndexes.py
sccloud/commands/Clustering.py
sccloud/commands/DeAnalysis.py
sccloud/commands/DemuxEM.py
sccloud/commands/DownSample.py
sccloud/commands/FindMarkers.py
sccloud/commands/PARQUET.py
sccloud/commands/Plotting.py
sccloud/commands/SCPOutput.py
sccloud/commands/SubClustering.py
sccloud/commands/View.py
sccloud/commands/__init__.py
sccloud/commands/iPlotting.py
sccloud/demuxEM/__init__.py
sccloud/demuxEM/demuxEM.py
sccloud/demuxEM/down_sampling.py
sccloud/demuxEM/plot.py
sccloud/io/__init__.py
sccloud/io/data_structure.py
sccloud/io/io.py
sccloud/misc/__init__.py
sccloud/misc/misc.py
sccloud/pipeline/__init__.py
sccloud/pipeline/demuxEM_pipeline.py
sccloud/pipeline/pipeline.py
sccloud/plotting/__init__.py
sccloud/plotting/iplot_library.py
sccloud/plotting/plot_library.py
sccloud/plotting/plot_qc.py
sccloud/plotting/plot_utils.py
sccloud/plotting/run_plotting.py
sccloud/tools/__init__.py
sccloud/tools/batch_correction.py
sccloud/tools/clustering.py
sccloud/tools/convert_to_parquet.py
sccloud/tools/data_aggregation.py
sccloud/tools/diff_expr.py
sccloud/tools/diffusion_map.py
sccloud/tools/down_sampling.py
sccloud/tools/gradient_boosting.py
sccloud/tools/graph_operations.py
sccloud/tools/hvf_selection.py
sccloud/tools/nearest_neighbors.py
sccloud/tools/net_regressor.py
sccloud/tools/preprocessing.py
sccloud/tools/pseudotime.py
sccloud/tools/scp_output.py
sccloud/tools/subcluster_utils.py
sccloud/tools/utils.py
sccloud/tools/visualization.py
tests/__init__.py
tests/test_aggregate.py
tests/test_annotate_cluster_pipeline.py
tests/test_cluster_pipeline.py
tests/test_de_pipeline.py
tests/test_find_markers_pipeline.py
tests/test_preprocessing.py
tests/test_read.py
tests/test_util.py