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python-biopython  1.60
make_subsmat Namespace Reference


tuple c_align = Clustalw.parse_file('protein.aln', IUPAC.protein)
tuple summary_align = AlignInfo.SummaryInfo(c_align)
tuple replace_info
tuple my_arm = SubsMat.SeqMat(replace_info)
tuple my_lom = SubsMat.make_log_odds_matrix(my_arm)

Variable Documentation

tuple make_subsmat.c_align = Clustalw.parse_file('protein.aln', IUPAC.protein)

Definition at line 14 of file

tuple make_subsmat.my_arm = SubsMat.SeqMat(replace_info)

Definition at line 23 of file

tuple make_subsmat.my_lom = SubsMat.make_log_odds_matrix(my_arm)

Definition at line 27 of file

Initial value:
00001 summary_align.replacement_dictionary(["G", "A", "V", "L", "I",
00002                                                      "M", "P", "F", "W", "S",
00003                                                      "T", "N", "Q", "Y", "C"])

Definition at line 19 of file

tuple make_subsmat.summary_align = AlignInfo.SummaryInfo(c_align)

Definition at line 15 of file