LICENSE
MANIFEST.in
README.md
setup.py
scna_spice.egg-info/PKG-INFO
scna_spice.egg-info/SOURCES.txt
scna_spice.egg-info/dependency_links.txt
scna_spice.egg-info/entry_points.txt
scna_spice.egg-info/not-zip-safe
scna_spice.egg-info/requires.txt
scna_spice.egg-info/top_level.txt
spice/__init__.py
spice/cli.py
spice/cli_functions.py
spice/data_loaders.py
spice/length_scales.py
spice/logging.py
spice/main_loci_functions.py
spice/pipeline_postprocessing.py
spice/plot.py
spice/segmentation.py
spice/utils.py
spice/event_analysis/__init__.py
spice/event_analysis/final_events.py
spice/event_inference/SV.py
spice/event_inference/__init__.py
spice/event_inference/data_structures.py
spice/event_inference/events_from_graph.py
spice/event_inference/fst_assets.py
spice/event_inference/fsts.py
spice/event_inference/knn_graph.py
spice/event_inference/mcmc_for_large_chroms.py
spice/event_inference/pipeline.py
spice/objects/__init__.py
spice/objects/centromeres.tsv
spice/objects/centromeres_ext.tsv
spice/objects/centromeres_observed.tsv
spice/objects/chrom_lengths.tsv
spice/objects/default_config.yaml
spice/objects/lookup_table_multiple_solutions_full_paths.pickle
spice/objects/lookup_table_single_solution_full_paths.pickle
spice/objects/reference_loci_position.tsv
spice/objects/telomeres_observed.tsv
spice/objects/train_events_sv_and_unamb.pickle
spice/preprocessing/__init__.py
spice/preprocessing/extra_preprocessing.py
spice/preprocessing/preprocessing.py
spice/preprocessing/split_input.py
spice/tsg_og/__init__.py
spice/tsg_og/detection.py
spice/tsg_og/event_rate_per_loci.py
spice/tsg_og/loci.py
spice/tsg_og/p_values.py
spice/tsg_og/plateaus.py
spice/tsg_og/signal_bootstrap.py
spice/tsg_og/simulation.py
tests/test_events_cli.py
tests/test_events_logging.py
tests/test_events_snakemake.py
tests/test_loci_cli.py