Did I find the right examples for you? yes no      Crawl my project      Python Jobs

All Samples(6)  |  Call(6)  |  Derive(0)  |  Import(0)

src/b/i/biopython-HEAD/Bio/AlignIO/FastaIO.py   biopython(Download)
        record._al_start = int(query_tags["al_start"])
        record._al_stop = int(query_tags["al_stop"])
        alignment.append(record)
 
        #TODO - What if a specific alphabet has been requested?
        record._al_start = int(match_tags["al_start"])
        record._al_stop = int(match_tags["al_stop"])
        alignment.append(record)
 
        #This is still a very crude way of dealing with the alphabet:

src/b/i/biopython-HEAD/Bio/FSSP/FSSPTools.py   biopython(Download)
    fssp_align = MultipleSeqAlignment([], alphabet=alpha)
    for i in sorted(mult_align_dict):
        fssp_align.append(SeqRecord(Seq(mult_align_dict[i], alpha),
                                    sum_dict[i].pdb2+sum_dict[i].chain2))
    return fssp_align

src/b/i/biopython-HEAD/Bio/Blast/Record.py   biopython(Download)
        generic = MultipleSeqAlignment([], alphabet)
        for (name, seq) in zip(seq_names, seq_parts):
            generic.append(SeqRecord(Seq(seq, alphabet), name))
 
        return generic

src/b/i/biopython-1.63/Bio/AlignIO/FastaIO.py   biopython(Download)
        record._al_start = int(query_tags["al_start"])
        record._al_stop = int(query_tags["al_stop"])
        alignment.append(record)
 
        #TODO - What if a specific alphabet has been requested?
        record._al_start = int(match_tags["al_start"])
        record._al_stop = int(match_tags["al_stop"])
        alignment.append(record)
 
        #This is still a very crude way of dealing with the alphabet: