.gitignore
LICENSE
MANIFEST.in
Makefile
README.md
README.rst
requirements.txt
setup.py
.github/workflows/build_check.yml
.github/workflows/build_weekly_check.yml
celloracle/__init__.py
celloracle/__init__.pyc
celloracle/helpers.py
celloracle/version.py
celloracle.egg-info/PKG-INFO
celloracle.egg-info/SOURCES.txt
celloracle.egg-info/dependency_links.txt
celloracle.egg-info/entry_points.txt
celloracle.egg-info/requires.txt
celloracle.egg-info/top_level.txt
celloracle/applications/__init__.py
celloracle/applications/development_module.py
celloracle/applications/differentiation_flow.py
celloracle/applications/pseudotime.py
celloracle/applications/scatter_to_grid.py
celloracle/applications/systematic_analysis_helper.py
celloracle/applications/utility.py
celloracle/data/__init__.py
celloracle/data/config.py
celloracle/data/load_data.py
celloracle/data/load_promoter_base_GRN.py
celloracle/data/__pycache__/__init__.cpython-36.pyc
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celloracle/data_conversion/process_seurat_object.py
celloracle/data_conversion/seurat_to_mtx.R
celloracle/go_analysis/__init__.py
celloracle/go_analysis/goatools_wrapper.py
celloracle/go_analysis/data/biomart_xref.mm10.txt
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celloracle/motif_analysis/__init__.py
celloracle/motif_analysis/modified_gimmemotif_function.py
celloracle/motif_analysis/motif_analysis_utility.py
celloracle/motif_analysis/motif_data.py
celloracle/motif_analysis/process_bed_file.py
celloracle/motif_analysis/process_cicero_data.py
celloracle/motif_analysis/reference_genomes.py
celloracle/motif_analysis/tfinfo_core.py
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celloracle/network/net_core.py
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celloracle/network/regression_models.py
celloracle/network_analysis/__init__.py
celloracle/network_analysis/cartography.py
celloracle/network_analysis/gene_analysis.py
celloracle/network_analysis/links_object.py
celloracle/network_analysis/network_analysis_utility.py
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celloracle/network_analysis/rscripts_for_network_analysis/test_igraph.R
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celloracle/oracle_utility/__init__.py
celloracle/oracle_utility/development_analysis.py
celloracle/oracle_utility/interactive_simulation_and_plot.py
celloracle/oracle_utility/make_figure.py
celloracle/oracle_utility/scatter_to_grid.py
celloracle/oracle_utility/utility.py
celloracle/oracle_utility/visualization.py
celloracle/tests/__init__.py
celloracle/tests/test_min.py
celloracle/tests/data/test_load_data.py
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celloracle/tests/motif_analysis/_test_motif_data.py
celloracle/tests/network_analysis/test_links_object.py
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celloracle/trajectory/neighbors.py
celloracle/trajectory/oracle_GRN.py
celloracle/trajectory/oracle_core.py
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celloracle/utility/hdf5_processing.py
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celloracle/utility/make_log.py
celloracle/utility/package_version_checker.py
celloracle/utility/pandas_utility_for_jupyternotebook.py
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celloracle/visualizations/__init__.py
celloracle/visualizations/config.py
celloracle/visualizations/development_module_visualization.py
celloracle/visualizations/oracle_object_visualization.py