Make the CodonTable.START_CODON an array

wurmlab / afra

Genome Annotation for the Masses

http://afra.sbcs.qmul.ac.uk

Apache License 2.0

36 stars 21 forks source link

Make the CodonTable.START_CODON an array #60

Closed hargup closed 9 years ago

hargup commented 9 years ago

Signed-off-by: Harsh Gupta gupta.harsh96@gmail.com

yeban commented 9 years ago

This PR totally misses the point.

We want to make CodonTable.START_CODON an array to allow non-canonical starts (like ATT) apart from the canonical ATG. Accordingly, setLongestORF should be able to compute longest open reading frame that starts with any of the start codons in the start codon array and ends with any of the stop codons in the stop codons array.