CHANGELOG.md
LICENSE
MANIFEST.in
README.md
pyproject.toml
requirements.txt
run_tests.bat
examples/01_example_use_stopping_power_tables.py
examples/02_example_compare_stopping_power_table_sources.py
examples/03_example_mkm_table_generation.py
examples/04_example_smk_table_generation.py
examples/05_example_osmk_table_generation_and_plot_OER.py
examples/06_example_survival_curve_computation.py
examples/MKM_table.mkm
examples/SMK_table.txt
examples/_00_appendix.py
examples/appendix_B1_stopping_and_zeta.png
examples/appendix_B1_zeta_only.png
examples/fluka_stopping_power_table_Carbon.json
pymkm/__init__.py
pymkm.egg-info/PKG-INFO
pymkm.egg-info/SOURCES.txt
pymkm.egg-info/dependency_links.txt
pymkm.egg-info/requires.txt
pymkm.egg-info/top_level.txt
pymkm/biology/__init__.py
pymkm/biology/oxygen_effect.py
pymkm/data/__init__.py
pymkm/data/elements.json
pymkm/data/defaults/__init__.py
pymkm/data/defaults/fluka_2020_0/Z01_A01_Hydrogen.txt
pymkm/data/defaults/fluka_2020_0/Z02_A04_Helium.txt
pymkm/data/defaults/fluka_2020_0/Z03_A07_Lithium.txt
pymkm/data/defaults/fluka_2020_0/Z04_A09_Beryllium.txt
pymkm/data/defaults/fluka_2020_0/Z05_A10_Boron.txt
pymkm/data/defaults/fluka_2020_0/Z06_A12_Carbon.txt
pymkm/data/defaults/fluka_2020_0/Z07_A14_Nitrogen.txt
pymkm/data/defaults/fluka_2020_0/Z08_A16_Oxygen.txt
pymkm/data/defaults/fluka_2020_0/Z09_A19_Fluorine.txt
pymkm/data/defaults/fluka_2020_0/Z10_A20_Neon.txt
pymkm/data/defaults/fluka_2020_0/__init__.py
pymkm/data/defaults/geant4_11_3_0/Z01_A01_Hydrogen.txt
pymkm/data/defaults/geant4_11_3_0/Z02_A04_Helium.txt
pymkm/data/defaults/geant4_11_3_0/Z03_A07_Lithium.txt
pymkm/data/defaults/geant4_11_3_0/Z04_A09_Beryllium.txt
pymkm/data/defaults/geant4_11_3_0/Z05_A10_Boron.txt
pymkm/data/defaults/geant4_11_3_0/Z06_A12_Carbon.txt
pymkm/data/defaults/geant4_11_3_0/Z07_A14_Nitrogen.txt
pymkm/data/defaults/geant4_11_3_0/Z08_A16_Oxygen.txt
pymkm/data/defaults/geant4_11_3_0/Z09_A19_Fluorine.txt
pymkm/data/defaults/geant4_11_3_0/Z10_A20_Neon.txt
pymkm/data/defaults/geant4_11_3_0/__init__.py
pymkm/data/defaults/mstar_3_12/Z01_A01_Hydrogen.txt
pymkm/data/defaults/mstar_3_12/Z02_A04_Helium.txt
pymkm/data/defaults/mstar_3_12/Z03_A07_Lithium.txt
pymkm/data/defaults/mstar_3_12/Z04_A09_Beryllium.txt
pymkm/data/defaults/mstar_3_12/Z05_A10_Boron.txt
pymkm/data/defaults/mstar_3_12/Z06_A12_Carbon.txt
pymkm/data/defaults/mstar_3_12/Z07_A14_Nitrogen.txt
pymkm/data/defaults/mstar_3_12/Z08_A16_Oxygen.txt
pymkm/data/defaults/mstar_3_12/Z09_A19_Fluorine.txt
pymkm/data/defaults/mstar_3_12/Z10_A20_Neon.txt
pymkm/data/defaults/mstar_3_12/__init__.py
pymkm/io/__init__.py
pymkm/io/data_registry.py
pymkm/io/stopping_power.py
pymkm/io/table_set.py
pymkm/mktable/__init__.py
pymkm/mktable/compute.py
pymkm/mktable/core.py
pymkm/mktable/plot.py
pymkm/physics/__init__.py
pymkm/physics/particle_track.py
pymkm/physics/specific_energy.py
pymkm/sftable/__init__.py
pymkm/sftable/compute.py
pymkm/sftable/core.py
pymkm/sftable/plot.py
pymkm/utils/__init__.py
pymkm/utils/geometry_tools.py
pymkm/utils/interpolation.py
pymkm/utils/parallel.py
tests/test_data_registry.py
tests/test_geometry_tools.py
tests/test_interpolation.py
tests/test_mktable_compute.py
tests/test_mktable_core.py
tests/test_mktable_plot.py
tests/test_oxygen_effect.py
tests/test_parallel.py
tests/test_particle_track.py
tests/test_sftable_compute.py
tests/test_sftable_core.py
tests/test_sftable_plot.py
tests/test_specific_energy.py
tests/test_stopping_power.py
tests/test_table_set.py
validation_results/run_all_validations.py
validation_results/validate_initial_local_dose.py
validation_results/validate_mk_table_classic.py
validation_results/validate_mk_table_classic_dose.py
validation_results/validate_mk_table_stochastic.py
validation_results/validate_sf_table_classic.py
validation_results/validate_sf_table_stochastic.py
validation_results/validate_sf_table_stochastic_OER.py
validation_results/validate_sf_table_stochastic_pO2.py
validation_results/validate_specific_energy.py
validation_results/validate_specific_energy_saturation.py
validation_results/initial_local_dose/figures/initial_local_dose_subplot_1.png
validation_results/initial_local_dose/figures/initial_local_dose_subplot_2.png
validation_results/initial_local_dose/figures/initial_local_dose_subplot_3.png
validation_results/initial_local_dose/metrics/initial_local_dose_metrics.csv
validation_results/initial_local_dose/reference_data/inaniwa2010_kc_Z1_50MeVu_let12.txt
validation_results/initial_local_dose/reference_data/inaniwa2010_kc_Z2_50MeVu_let49.txt
validation_results/initial_local_dose/reference_data/inaniwa2010_kc_Z3_50MeVu_let111.txt
validation_results/initial_local_dose/reference_data/inaniwa2010_kc_Z4_50MeVu_let198.txt
validation_results/initial_local_dose/reference_data/inaniwa2010_kc_Z5_50MeVu_let310.txt
validation_results/initial_local_dose/reference_data/inaniwa2010_kc_Z6_50MeVu_let446.txt
validation_results/initial_local_dose/reference_data/kase2008_kc_Z6_43MeVu_let500.txt
validation_results/initial_local_dose/reference_data/kase2008_sk_Z6_43MeVu_let500.txt
validation_results/mk_table_classic/figures/z_bar_star_domain_Z1_mstar_3_12.png
validation_results/mk_table_classic/figures/z_bar_star_domain_Z2_mstar_3_12.png
validation_results/mk_table_classic/figures/z_bar_star_domain_Z3_mstar_3_12.png
validation_results/mk_table_classic/figures/z_bar_star_domain_Z4_mstar_3_12.png
validation_results/mk_table_classic/figures/z_bar_star_domain_Z5_mstar_3_12.png
validation_results/mk_table_classic/figures/z_bar_star_domain_Z6_mstar_3_12.png
validation_results/mk_table_classic/metrics/mk_table_classic_metrics_mstar_3_12.csv
validation_results/mk_table_classic/reference_data/inaniwa2010_kc_Z1_rd0.32_rn3.9_b00.0615.txt
validation_results/mk_table_classic/reference_data/inaniwa2010_kc_Z2_rd0.32_rn3.9_b00.0615.txt
validation_results/mk_table_classic/reference_data/inaniwa2010_kc_Z3_rd0.32_rn3.9_b00.0615.txt
validation_results/mk_table_classic/reference_data/inaniwa2010_kc_Z4_rd0.32_rn3.9_b00.0615.txt
validation_results/mk_table_classic/reference_data/inaniwa2010_kc_Z5_rd0.32_rn3.9_b00.0615.txt
validation_results/mk_table_classic/reference_data/inaniwa2010_kc_Z6_rd0.32_rn3.9_b00.0615.txt
validation_results/mk_table_classic_dose/figures/D10_vs_LET_mstar_3_12.png
validation_results/mk_table_classic_dose/metrics/mk_table_classic_dose_metrics_mstar_3_12.csv
validation_results/mk_table_classic_dose/reference_data/inaniwa2010_kc_Z10_rd0.32_rn3.9_b00.0615_a00.172.txt
validation_results/mk_table_classic_dose/reference_data/inaniwa2010_kc_Z2_rd0.32_rn3.9_b00.0615_a00.172.txt
validation_results/mk_table_classic_dose/reference_data/inaniwa2010_kc_Z6_rd0.32_rn3.9_b00.0615_a00.172.txt
validation_results/mk_table_stochastic/figures/z_bar_all_Z10_mstar_3_12.png
validation_results/mk_table_stochastic/figures/z_bar_all_Z1_mstar_3_12.png
validation_results/mk_table_stochastic/figures/z_bar_all_Z2_mstar_3_12.png
validation_results/mk_table_stochastic/figures/z_bar_all_Z3_mstar_3_12.png
validation_results/mk_table_stochastic/figures/z_bar_all_Z4_mstar_3_12.png
validation_results/mk_table_stochastic/figures/z_bar_all_Z5_mstar_3_12.png
validation_results/mk_table_stochastic/figures/z_bar_all_Z6_mstar_3_12.png
validation_results/mk_table_stochastic/figures/z_bar_all_Z7_mstar_3_12.png
validation_results/mk_table_stochastic/figures/z_bar_all_Z8_mstar_3_12.png
validation_results/mk_table_stochastic/figures/z_bar_all_Z9_mstar_3_12.png
validation_results/mk_table_stochastic/metrics/mk_table_stochastic_metrics_mstar_3_12.csv
validation_results/mk_table_stochastic/reference_data/mk_table_avg_domain/inaniwa2018_kc_Z10_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_domain/inaniwa2018_kc_Z1_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_domain/inaniwa2018_kc_Z2_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_domain/inaniwa2018_kc_Z3_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_domain/inaniwa2018_kc_Z4_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_domain/inaniwa2018_kc_Z5_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_domain/inaniwa2018_kc_Z6_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_domain/inaniwa2018_kc_Z7_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_domain/inaniwa2018_kc_Z8_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_domain/inaniwa2018_kc_Z9_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_nucleus/inaniwa2018_kc_Z10_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_nucleus/inaniwa2018_kc_Z1_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_nucleus/inaniwa2018_kc_Z2_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_nucleus/inaniwa2018_kc_Z3_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_nucleus/inaniwa2018_kc_Z4_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_nucleus/inaniwa2018_kc_Z5_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_nucleus/inaniwa2018_kc_Z6_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_nucleus/inaniwa2018_kc_Z7_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_nucleus/inaniwa2018_kc_Z8_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_nucleus/inaniwa2018_kc_Z9_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_saturation_domain/inaniwa2018_kc_Z10_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_saturation_domain/inaniwa2018_kc_Z1_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_saturation_domain/inaniwa2018_kc_Z2_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_saturation_domain/inaniwa2018_kc_Z3_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_saturation_domain/inaniwa2018_kc_Z4_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_saturation_domain/inaniwa2018_kc_Z5_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_saturation_domain/inaniwa2018_kc_Z6_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_saturation_domain/inaniwa2018_kc_Z7_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_saturation_domain/inaniwa2018_kc_Z8_rd0.28_rn8.1_z066.0.txt
validation_results/mk_table_stochastic/reference_data/mk_table_avg_saturation_domain/inaniwa2018_kc_Z9_rd0.28_rn8.1_z066.0.txt
validation_results/sf_table_classic/figures/HSG_Z10_mstar_3_12.png
validation_results/sf_table_classic/figures/HSG_Z2_mstar_3_12.png
validation_results/sf_table_classic/figures/HSG_Z6_mstar_3_12.png
validation_results/sf_table_classic/figures/V79_Z10_mstar_3_12.png
validation_results/sf_table_classic/figures/V79_Z2_mstar_3_12.png
validation_results/sf_table_classic/figures/V79_Z6_mstar_3_12.png
validation_results/sf_table_classic/metrics/sf_table_classic_metrics_mstar_3_12.csv
validation_results/sf_table_classic/reference_data/HSG/Inaniwa2018_kc_Z10_rd0.29_rn3.9_z055.0_b00.0593_a00.150_let3430.txt
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validation_results/sf_table_classic/reference_data/HSG/Inaniwa2018_kc_Z2_rd0.29_rn3.9_z055.0_b00.0593_a00.150_let186.txt
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validation_results/sf_table_stochastic/figures/HSG_Z10_mstar_3_12.png
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validation_results/sf_table_stochastic_OER/figures/OER_curve_CHO_Z6_pO2_0_mstar_3_12_v2021.png
validation_results/sf_table_stochastic_OER/figures/OER_curve_CHO_Z6_pO2_0_mstar_3_12_v2023.png
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validation_results/sf_table_stochastic_OER/figures/OER_curve_CHO_Z6_pO2_1_mstar_3_12_v2023.png
validation_results/sf_table_stochastic_OER/figures/OER_curve_CHO_Z6_pO2_3_mstar_3_12_v2021.png
validation_results/sf_table_stochastic_OER/figures/OER_curve_CHO_Z6_pO2_3_mstar_3_12_v2023.png
validation_results/sf_table_stochastic_OER/figures/OER_curve_CHO_Z7_pO2_0_mstar_3_12_v2021.png
validation_results/sf_table_stochastic_OER/figures/OER_curve_CHO_Z7_pO2_0_mstar_3_12_v2023.png
validation_results/sf_table_stochastic_OER/figures/OER_curve_CHO_Z8_pO2_0_mstar_3_12_v2021.png
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validation_results/specific_energy_saturation/reference_data/inaniwa2010_kc_Z6_50MeVu_let446_rd0.10_rn2.0_b00.0615.txt
validation_results/specific_energy_saturation/reference_data/inaniwa2010_kc_Z6_50MeVu_let446_rd0.10_rn5.0_b00.0615.txt
validation_results/specific_energy_saturation/reference_data/inaniwa2010_kc_Z6_50MeVu_let446_rd0.32_rn3.9_b00.0615.txt
validation_results/specific_energy_saturation/reference_data/inaniwa2010_kc_Z6_50MeVu_let446_rd1.00_rn5.0_b00.0615.txt
validation_results/validation_utils/inverse_dose.py
validation_results/validation_utils/layout.py
validation_results/validation_utils/loader.py
validation_results/validation_utils/metrics.py