I'm not able to understand what this excerpt means ... Does he say he can modify the genetic code?
As written above, each is a method of the codonw
.CononSeq object, e.g.
import codonw cseq = codonw.CodonSeq("ATGAATATGCTCATTGTCGGTAGAGTTGTTGCTAGTGTTGGGGGAAGCGGACTTCAAACG") cseq.cai()
The return type can be a simple value,
The genetic codes can be specified by setting the
CodonSeq.genetic_code property with a
pd.Series whose index is a codon and value is the single letter amino acid. Instantiate an object and see
CodonSeq.genetic_code for more details.
Some indicies have an option of reference values to choose from (e.g. CodonSeq.fop). Several references values can be chosen by specifying the corresponding integer. If you'd like to have user-provided reference values, please implement this functionality and make a pull-request.