Package Bio :: Package SeqUtils :: Module CodonUsage

Module CodonUsage

Classes

CodonAdaptationIndex
This class implements the codon adaptaion index (CAI) described by Sharp and Li (Nucleic Acids Res.

Variables

[hide private]

CodonsDict = {'AAA': 0, 'AAC': 0, 'AAG': 0, 'AAT': 0, 'ACA': 0...

SynonymousCodons = {'ALA': ['GCA', 'GCC', 'GCG', 'GCT'], 'ARG'...

Variables Details

[hide private]

CodonsDict

Value:

{'AAA': 0,
 'AAC': 0,
 'AAG': 0,
 'AAT': 0,
 'ACA': 0,
 'ACC': 0,
 'ACG': 0,
 'ACT': 0,
...

SynonymousCodons

Value:

{'ALA': ['GCA', 'GCC', 'GCG', 'GCT'],
 'ARG': ['CGA', 'CGC', 'CGG', 'CGT', 'AGG', 'AGA'],
 'ASN': ['AAC', 'AAT'],
 'ASP': ['GAT', 'GAC'],
 'CYS': ['TGT', 'TGC'],
 'GLN': ['CAA', 'CAG'],
 'GLU': ['GAG', 'GAA'],
 'GLY': ['GGT', 'GGG', 'GGA', 'GGC'],
...