README.md
setup.cfg
setup.py
src/frame_alignment_checks/__init__.py
src/frame_alignment_checks/bootstrap.py
src/frame_alignment_checks/coding_exon.py
src/frame_alignment_checks/compute_stop_codons.py
src/frame_alignment_checks/load_data.py
src/frame_alignment_checks/models.py
src/frame_alignment_checks/utils.py
src/frame_alignment_checks.egg-info/PKG-INFO
src/frame_alignment_checks.egg-info/SOURCES.txt
src/frame_alignment_checks.egg-info/dependency_links.txt
src/frame_alignment_checks.egg-info/requires.txt
src/frame_alignment_checks.egg-info/top_level.txt
src/frame_alignment_checks/data/__init__.py
src/frame_alignment_checks/data/long_canonical_internal_coding_exons.pkl
src/frame_alignment_checks/data/minigene_FAS_6.pkl
src/frame_alignment_checks/data/minigene_WT1_5.pkl
src/frame_alignment_checks/data/phase_handedness_test_set.pkl.gz
src/frame_alignment_checks/data/relevant_validation_genes.npz
src/frame_alignment_checks/data/saturation_mutagenesis_Supplemental_Table_S2.xlsx
src/frame_alignment_checks/data/train_handedness_counts.npz
src/frame_alignment_checks/deletion/__init__.py
src/frame_alignment_checks/deletion/delete.py
src/frame_alignment_checks/deletion/deletion_num_stops.py
src/frame_alignment_checks/deletion/deletion_repair.py
src/frame_alignment_checks/phase_handedness/__init__.py
src/frame_alignment_checks/phase_handedness/best_5mers_each.py
src/frame_alignment_checks/phase_handedness/compute_self_agreement.py
src/frame_alignment_checks/plotting/__init__.py
src/frame_alignment_checks/plotting/colors.py
src/frame_alignment_checks/plotting/deletion_plotting.py
src/frame_alignment_checks/plotting/multi_seed_experiment.py
src/frame_alignment_checks/real_experiments/__init__.py
src/frame_alignment_checks/real_experiments/experiment_results.py
src/frame_alignment_checks/real_experiments/math.py
src/frame_alignment_checks/real_experiments/plot_masks.py
src/frame_alignment_checks/real_experiments/plot_summary.py
src/frame_alignment_checks/real_experiments/saturation_mutagenesis.py
src/frame_alignment_checks/real_experiments/venn.py
src/frame_alignment_checks/replace_3mer/__init__.py
src/frame_alignment_checks/replace_3mer/plotting.py
src/frame_alignment_checks/replace_3mer/stop_codon_replacement.py
src/frame_alignment_checks/replace_3mer/stop_codon_replacement_no_undesired_changes.py
src/frame_alignment_checks/statistics/__init__.py
src/frame_alignment_checks/statistics/handedness_logos.py