LICENSE
README.md
extra_laml_tests.py
laml_tests.py
run_laml.py
setup.py
LAML.egg-info/PKG-INFO
LAML.egg-info/SOURCES.txt
LAML.egg-info/dependency_links.txt
LAML.egg-info/entry_points.txt
LAML.egg-info/requires.txt
LAML.egg-info/top_level.txt
LAML.egg-info/zip-safe
laml_libs/EM_solver.py
laml_libs/ML_solver.py
laml_libs/SpaLin_solver.py
laml_libs/Topology_search.py
laml_libs/Topology_search_parallel.py
laml_libs/Virtual_solver.py
laml_libs/__init__.py
laml_libs/ambient_noise_solver.py
laml_libs/distance_based_lib.py
laml_libs/eval_lib.py
laml_libs/lca_lib.py
laml_libs/plot_lib.py
laml_libs/sequence_lib.py
laml_libs/sim_lib.py
laml_libs/mixins/__init__.py
laml_libs/mixins/errors.py
laml_libs/mixins/logging.py
laml_libs/mixins/utilities.py
laml_libs/mixins/warnings.py
laml_libs/preprocess/UMI_utils.py
laml_libs/preprocess/__init__.py
laml_libs/preprocess/alignment_utilities.py
laml_libs/preprocess/cassiopeia_preprocess.py
laml_libs/preprocess/collapse_cython.py
laml_libs/preprocess/constants.py
laml_libs/preprocess/doublet_utils.py
laml_libs/preprocess/lineage_utils.py
laml_libs/preprocess/map_utils.py
laml_libs/preprocess/pipeline.py
laml_libs/preprocess/setup_utilities.py
laml_libs/preprocess/utilities.py
laml_unit_tests/__init__.py
laml_unit_tests/unit_tests_EMSolver.py
laml_unit_tests/unit_tests_MLSolver.py
laml_unit_tests/unit_tests_Simulator.py
laml_unit_tests/unit_tests_SpaLinSolver.py
laml_unit_tests/unit_tests_TopoSearch.py
laml_unit_tests/unit_tests_TopoSearchParallel.py
laml_unit_tests/unit_tests_io.py
laml_unit_tests/unit_tests_mosek.py
laml_unit_tests/utils.py
laml_unit_tests/test_data/test_EM/test1.tre
laml_unit_tests/test_data/test_EM/test1_charMtrx.txt
laml_unit_tests/test_data/test_EM/test2.tre
laml_unit_tests/test_data/test_EM/test2_charMtrx.txt
laml_unit_tests/test_data/test_EM/test3.tre
laml_unit_tests/test_data/test_EM/test3_charMtrx.txt
laml_unit_tests/test_data/test_EM/test4.tre
laml_unit_tests/test_data/test_EM/test4_charMtrx.txt
laml_unit_tests/test_data/test_EM/test4_prior.csv
laml_unit_tests/test_data/test_inputs/test1.tre
laml_unit_tests/test_data/test_inputs/test1_charMtrx.txt
laml_unit_tests/test_data/test_inputs/example1/README
laml_unit_tests/test_data/test_inputs/example1/character_matrix.csv
laml_unit_tests/test_data/test_inputs/example1/priors.csv
laml_unit_tests/test_data/test_inputs/example1/starting.tree
laml_unit_tests/test_data/test_inputs/example2/character_matrix.csv
laml_unit_tests/test_data/test_inputs/example2/priors.csv
laml_unit_tests/test_data/test_inputs/example2/starting.tree
laml_unit_tests/test_data/test_simulator/test.tre