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marker_nodal_distribution		marker_nodal_distribution
4plex_cd9_exp.svg		4plex_cd9_exp.svg
4plex_cd9_exp_full.svg		4plex_cd9_exp_full.svg
4plex_data.svg		4plex_data.svg
4plex_data_full.svg		4plex_data_full.svg
4plex_data_full_2_branches.svg		4plex_data_full_2_branches.svg
4plex_data_full_marker_class.svg		4plex_data_full_marker_class.svg
4plex_sdc1_exp_full.svg		4plex_sdc1_exp_full.svg
__init__.py		__init__.py
benchmark.py		benchmark.py
benchmark_table.csv		benchmark_table.csv
benchmark_table_mod.csv		benchmark_table_mod.csv
branch_A.svg		branch_A.svg
branch_B.svg		branch_B.svg
col1a2_dist_above_40.svg		col1a2_dist_above_40.svg
counter_node_modularity.svg		counter_node_modularity.svg
example_1.png		example_1.png
exp_path.png		exp_path.png
exp_path_test.svg		exp_path_test.svg
fap_dist_below_33.svg		fap_dist_below_33.svg
heterogeneity.svg		heterogeneity.svg
log_benchmark_table.csv		log_benchmark_table.csv
log_linear_iter.png		log_linear_iter.png
log_linear_time.png		log_linear_time.png
medusa_example_aug_28_2025.yaml		medusa_example_aug_28_2025.yaml
plot_linear_model_for_iter.py		plot_linear_model_for_iter.py
plot_linear_model_for_time.py		plot_linear_model_for_time.py
pruned_tree_v0.svg		pruned_tree_v0.svg
pruned_tree_v1.svg		pruned_tree_v1.svg
pruned_tree_v2.svg		pruned_tree_v2.svg
tabula_sapiens_time.png		tabula_sapiens_time.png
test_toomanycells.py		test_toomanycells.py
tmci_tabula_sapiens.png		tmci_tabula_sapiens.png
tree_path_example.svg		tree_path_example.svg