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Rosetta
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Namespaces | |
| DRRAFTER_util | |
Functions | |
| def | DRRAFTER_util.get_helix_stems (secstruct) |
| def | DRRAFTER_util.graph_from_ss (ss_init, add_closing_pair=True) |
| def | DRRAFTER_util.find_pairs (secstruct, helix_chars=[['(',')'],['[',']'],['{','}'], ['<','>']]) |
| def | DRRAFTER_util.residue_graph_from_ss (ss) |
| def | DRRAFTER_util.pdbslice (pdbfile, subset_or_excise, segment_residues, prefix) |
| def | DRRAFTER_util.matches (res, chain, match_res, match_chain) |
| def | DRRAFTER_util.make_tag (int_vector) |
| def | DRRAFTER_util.make_tag_with_dashes (int_vector, char_vector=0) |
| def | DRRAFTER_util.parse_tag (tag, alpha_sort=False) |
| def | DRRAFTER_util.get_sequences (pdbname, removechain=0) |
| def | DRRAFTER_util.read_pdb (filename) |
| def | DRRAFTER_util.read_pdb_with_segid (filename) |
| def | DRRAFTER_util.better_reorder_pdb (pdb) |
| def | DRRAFTER_util.rna_helix (seq, resnum, output_pdb, rosetta_directory, rosetta_extension, test=False) |
| def | DRRAFTER_util.get_resnum_chain (input_string, resnums, chains, segids) |
| def | DRRAFTER_util.renumber_pdb (pdbnames, new_numbers, chains=[], segids=[], retain_atom_num=0) |
| def | DRRAFTER_util.get_ints (int_string, value) |
| def | DRRAFTER_util.easy_cat (outfile) |
| def | DRRAFTER_util.cat_outfiles (outfiles, output_file) |
| def | DRRAFTER_util.extract_lowscore_decoys (silent_file, NSTRUCT, rosetta_directory, rosetta_extension, test=False) |
Variables | |
| dictionary | DRRAFTER_util.hetatm_map = { '5BU':' U', ' MG':' MG', 'OMC':' C', '5MC':' C', 'CCC':' C', ' DC':' C', 'CBR':' C', 'CBV':' C', 'CB2':' C', '2MG':' G', 'H2U':'H2U', 'PSU':'PSU', '5MU':' U', 'OMG':' G', '7MG':' G', '1MG':' G', 'GTP':' G', 'AMP':' A', ' YG':' G', '1MA':' A', 'M2G':' G', 'YYG':' G', ' DG':' G', 'G46':' G', ' IC':' IC',' IG':' IG', 'ZMP':'ZMP' } |
| dictionary | DRRAFTER_util.longer_names |
1.9.1