CITATION.bib
LICENSE.txt
MANIFEST.in
README.md
installation.md
pyproject.toml
qDNA/__init__.py
qDNA/defaults.yaml
qDNA/dna_seq.py
qDNA/qDNA-default.mplstyle
qDNA.egg-info/PKG-INFO
qDNA.egg-info/SOURCES.txt
qDNA.egg-info/dependency_links.txt
qDNA.egg-info/requires.txt
qDNA.egg-info/top_level.txt
qDNA/data/data_paper/dipole_7bp_J0.5.json
qDNA/data/data_paper/dipole_7bp_J0.json
qDNA/data/data_paper/dipole_7bp_J1.json
qDNA/data/data_paper/lifetime_4bp_relax0.01.json
qDNA/data/data_paper/lifetime_4bp_relax0.02.json
qDNA/data/data_paper/lifetime_4bp_relax0.05.json
qDNA/data/data_paper/lifetime_7bp_J0.5.json
qDNA/data/data_paper/lifetime_7bp_J0.json
qDNA/data/data_paper/lifetime_7bp_J1.json
qDNA/data/figures_paper/Fig_1.pdf
qDNA/data/figures_paper/Fig_2.pdf
qDNA/data/figures_paper/Fig_3.pdf
qDNA/data/figures_paper/Fig_3a.pdf
qDNA/data/figures_paper/Fig_3b.pdf
qDNA/data/figures_paper/Fig_4.pdf
qDNA/data/figures_paper/Fig_5a.pdf
qDNA/data/figures_paper/Fig_5b.pdf
qDNA/data/figures_paper/Fig_6.pdf
qDNA/data/figures_paper/Fig_7.pdf
qDNA/data/figures_paper/Fig_8a.pdf
qDNA/data/figures_paper/Fig_8b.pdf
qDNA/data/figures_paper/Fig_S1.pdf
qDNA/data/figures_paper/Fig_S2.pdf
qDNA/data/figures_paper/Fig_S3a.pdf
qDNA/data/figures_paper/Fig_S3b.pdf
qDNA/data/figures_paper/Fig_S4.pdf
qDNA/data/figures_paper/Fig_S5.pdf
qDNA/data/figures_tutorials/FMO_energy_level.png
qDNA/data/figures_tutorials/Fig_1.png
qDNA/data/figures_tutorials/Fig_2.png
qDNA/data/figures_tutorials/base_translation_rotation.png
qDNA/data/raw/comp_time.json
qDNA/data/raw/config.json
qDNA/data/raw/tb_models.json
qDNA/data/raw/lcao_params/HKS.json
qDNA/data/raw/lcao_params/MMTS.json
qDNA/data/raw/lcao_params/MSF.json
qDNA/data/raw/tb_params/1BNA_electron_ELM.json
qDNA/data/raw/tb_params/1BNA_hole_ELM.json
qDNA/data/raw/tb_params/Bittner2007_electron_ELM.json
qDNA/data/raw/tb_params/Bittner2007_exciton_ELM.json
qDNA/data/raw/tb_params/Bittner2007_hole_ELM.json
qDNA/data/raw/tb_params/Endres2002_electron_WM copy.json
qDNA/data/raw/tb_params/Endres2002_hole_WM.json
qDNA/data/raw/tb_params/Hawke2010_electron_ELM.json
qDNA/data/raw/tb_params/Hawke2010_electron_FELM.json
qDNA/data/raw/tb_params/Hawke2010_electron_FLM.json
qDNA/data/raw/tb_params/Hawke2010_electron_FWM.json
qDNA/data/raw/tb_params/Hawke2010_electron_LM.json
qDNA/data/raw/tb_params/Hawke2010_electron_WM.json
qDNA/data/raw/tb_params/Hawke2010_hole_ELM.json
qDNA/data/raw/tb_params/Hawke2010_hole_FELM.json
qDNA/data/raw/tb_params/Hawke2010_hole_FLM.json
qDNA/data/raw/tb_params/Hawke2010_hole_FWM.json
qDNA/data/raw/tb_params/Hawke2010_hole_LM.json
qDNA/data/raw/tb_params/Hawke2010_hole_WM.json
qDNA/data/raw/tb_params/Herb2024_electron_ELM.json
qDNA/data/raw/tb_params/Herb2024_electron_LM.json
qDNA/data/raw/tb_params/Herb2024_electron_WM.json
qDNA/data/raw/tb_params/Herb2024_hole_ELM.json
qDNA/data/raw/tb_params/Herb2024_hole_LM.json
qDNA/data/raw/tb_params/Herb2024_hole_WM.json
qDNA/data/raw/tb_params/Mantela2021_electron_WM.json
qDNA/data/raw/tb_params/Mantela2021_hole_WM.json
qDNA/data/raw/tb_params/Simserides2014_electron_WM.json
qDNA/data/raw/tb_params/Simserides2014_hole_WM.json
qDNA/data/raw/tb_params/Simserides2024_electron_ELM.json
qDNA/data/raw/tb_params/Simserides2024_electron_FELM.json
qDNA/data/raw/tb_params/Simserides2024_hole_ELM.json
qDNA/data/raw/tb_params/Simserides2024_hole_FELM.json
qDNA/dynamics/__init__.py
qDNA/dynamics/reduced_dm.py
qDNA/dynamics/solver.py
qDNA/environment/__init__.py
qDNA/environment/deph_ops.py
qDNA/environment/lindblad.py
qDNA/environment/observables.py
qDNA/environment/relax_ops.py
qDNA/environment/therm_ops.py
qDNA/environment/therm_rates.py
qDNA/evaluation/__init__.py
qDNA/evaluation/dipole.py
qDNA/evaluation/eq_states.py
qDNA/evaluation/exciton_transfer.py
qDNA/evaluation/lifetime.py
qDNA/gui/__init__.py
qDNA/gui/config_frame.py
qDNA/gui/diss_frame.py
qDNA/gui/dynamics_frame.py
qDNA/gui/fasta_window.py
qDNA/gui/ham_frame.py
qDNA/gui/initial_frame.py
qDNA/gui/options_frame.py
qDNA/gui/pdb_window.py
qDNA/gui/plot_options_frame.py
qDNA/gui/plotting_window.py
qDNA/gui/qdna_app.py
qDNA/gui/scrollable_console_frame.py
qDNA/gui/user_interface_utils.py
qDNA/hamiltonian/__init__.py
qDNA/hamiltonian/tb_ham.py
qDNA/hamiltonian/tb_matrices.py
qDNA/hamiltonian/tb_params.py
qDNA/lcao/__init__.py
qDNA/lcao/base.py
qDNA/lcao/base_pair.py
qDNA/lcao/dimer.py
qDNA/lcao/save_load.py
qDNA/lcao/slater_koster.py
qDNA/lcao/tb_params.py
qDNA/model/__init__.py
qDNA/model/tb_basis.py
qDNA/model/tb_config.py
qDNA/model/tb_model.py
qDNA/tools/__init__.py
qDNA/tools/check_input.py
qDNA/tools/helpers.py
qDNA/tools/save_load.py
qDNA/utils/__init__.py
qDNA/utils/dm_analysis.py
qDNA/utils/ham_analysis.py
qDNA/utils/unit_converter.py
qDNA/visualization/__init__.py
qDNA/visualization/plot_dna_base_frequency.py
qDNA/visualization/plot_eigenspectrum.py
qDNA/visualization/plot_fourier.py
qDNA/visualization/plot_pop.py
requirements/dev-requirements.txt
requirements/doc-requirements.txt
requirements/requirements.txt
tests/test_dna_seq.py