CREDITS
LICENSE
MANIFEST.in
README.rst
setup.cfg
setup.py
examples/compare_RNA.py
examples/describe_cg.py
examples/forgi_config.py
examples/pseudoknot_analyzer.py
examples/rnaConvert.py
examples/visualize_rna.py
forgi/__init__.py
forgi/config.py
forgi/whitelist.py
forgi.egg-info/PKG-INFO
forgi.egg-info/SOURCES.txt
forgi.egg-info/dependency_links.txt
forgi.egg-info/not-zip-safe
forgi.egg-info/requires.txt
forgi.egg-info/top_level.txt
forgi/_k2n_standalone/__init__.py
forgi/_k2n_standalone/bpseq.py
forgi/_k2n_standalone/ct_simple.py
forgi/_k2n_standalone/dict2d.py
forgi/_k2n_standalone/knots.py
forgi/_k2n_standalone/knotted2nested.py
forgi/_k2n_standalone/output.py
forgi/_k2n_standalone/rna2d.py
forgi/graph/__init__.py
forgi/graph/_basegraph.py
forgi/graph/_cofold.py
forgi/graph/_graph_construction.py
forgi/graph/bulge_graph.py
forgi/graph/residue.py
forgi/graph/sequence.py
forgi/graph/transform_graphs.py
forgi/projection/__init__.py
forgi/projection/hausdorff.py
forgi/projection/projection2d.py
forgi/threedee/__init__.py
forgi/threedee/classification/__init__.py
forgi/threedee/classification/aminor.py
forgi/threedee/classification/_training/__init__.py
forgi/threedee/classification/_training/_parse_utils.py
forgi/threedee/classification/_training/aminor_training.py
forgi/threedee/classification/_training/train_aminor.py
forgi/threedee/data/aminor_geometries.csv
forgi/threedee/data/aminor_params.json
forgi/threedee/data/average_atom_positions.json
forgi/threedee/data/ideal_1_10_11_20.pdb
forgi/threedee/data/ideal_1_11_12_22.pdb
forgi/threedee/data/ideal_1_12_13_24.pdb
forgi/threedee/data/ideal_1_13_14_26.pdb
forgi/threedee/data/ideal_1_14_15_28.pdb
forgi/threedee/data/ideal_1_15_16_30.pdb
forgi/threedee/data/ideal_1_16_17_32.pdb
forgi/threedee/data/ideal_1_17_18_34.pdb
forgi/threedee/data/ideal_1_18_19_36.pdb
forgi/threedee/data/ideal_1_19_20_38.pdb
forgi/threedee/data/ideal_1_1_2_2.pdb
forgi/threedee/data/ideal_1_20_21_40.pdb
forgi/threedee/data/ideal_1_21_22_42.pdb
forgi/threedee/data/ideal_1_22_23_44.pdb
forgi/threedee/data/ideal_1_23_24_46.pdb
forgi/threedee/data/ideal_1_24_25_48.pdb
forgi/threedee/data/ideal_1_25_26_50.pdb
forgi/threedee/data/ideal_1_26_27_52.pdb
forgi/threedee/data/ideal_1_27_28_54.pdb
forgi/threedee/data/ideal_1_28_29_56.pdb
forgi/threedee/data/ideal_1_29_30_58.pdb
forgi/threedee/data/ideal_1_2_3_4.pdb
forgi/threedee/data/ideal_1_30_31_60.pdb
forgi/threedee/data/ideal_1_31_32_62.pdb
forgi/threedee/data/ideal_1_32_33_64.pdb
forgi/threedee/data/ideal_1_33_34_66.pdb
forgi/threedee/data/ideal_1_34_35_68.pdb
forgi/threedee/data/ideal_1_35_36_70.pdb
forgi/threedee/data/ideal_1_36_37_72.pdb
forgi/threedee/data/ideal_1_37_38_74.pdb
forgi/threedee/data/ideal_1_38_39_76.pdb
forgi/threedee/data/ideal_1_39_40_78.pdb
forgi/threedee/data/ideal_1_3_4_6.pdb
forgi/threedee/data/ideal_1_40_41_80.pdb
forgi/threedee/data/ideal_1_4_5_8.pdb
forgi/threedee/data/ideal_1_5_6_10.pdb
forgi/threedee/data/ideal_1_6_7_12.pdb
forgi/threedee/data/ideal_1_7_8_14.pdb
forgi/threedee/data/ideal_1_8_9_16.pdb
forgi/threedee/data/ideal_1_9_10_18.pdb
forgi/threedee/model/__init__.py
forgi/threedee/model/_ensemble.py
forgi/threedee/model/_ensemble2.py
forgi/threedee/model/coarse_grain.py
forgi/threedee/model/descriptors.py
forgi/threedee/model/linecloud.py
forgi/threedee/model/similarity.py
forgi/threedee/model/stats.py
forgi/threedee/model/transform_cg.py
forgi/threedee/utilities/__init__.py
forgi/threedee/utilities/_dssr.py
forgi/threedee/utilities/average_stem_vres_atom_positions.py
forgi/threedee/utilities/broken_ml_core.cpp
forgi/threedee/utilities/broken_ml_core.h
forgi/threedee/utilities/broken_ml_core_py.pxd
forgi/threedee/utilities/cytvec.pyx
forgi/threedee/utilities/graph_pdb.py
forgi/threedee/utilities/mcannotate.py
forgi/threedee/utilities/modified_res.py
forgi/threedee/utilities/modified_res_lookup.py
forgi/threedee/utilities/my_math.py
forgi/threedee/utilities/pdb.py
forgi/threedee/utilities/vector.py
forgi/threedee/utilities/virtual_residues.py
forgi/threedee/visual/__init__.py
forgi/threedee/visual/pymol.py
forgi/utilities/__init__.py
forgi/utilities/commandline_utils.py
forgi/utilities/debug.py
forgi/utilities/exceptions.py
forgi/utilities/graph.py
forgi/utilities/numbered_dotbracket.py
forgi/utilities/observedDict.py
forgi/utilities/stuff.py
forgi/visual/__init__.py
forgi/visual/fornac.py
forgi/visual/mplotlib.py
performance_tests/broken_ml_core.h
performance_tests/broken_ml_core_py.pxd
performance_tests/brokenml1.pyx
performance_tests/brokenml2.pyx
performance_tests/brokenml3.pyx
performance_tests/cppvect.pyx
performance_tests/orthonormal_test.pyx