[BiO BB] Synonymous SNP finding

[Jicheng Hao]

I have used MUMmer to find SNPs between an incomplete genome and its
reference completed genome.  I then use Artemis manually to find
synonymous SNPs by studying genes on the reference genome.

I wonder if there is an automatic way(tool) to conduct Synonymous SNP
finding. Otherwise,  I have to write a tool to do that.

Thank you.

Jicheng Hao, Ph.D.
Staff Scientist, Bioinformatics
Comparative Genomics Unit
Pathogen Genomics Division 
Translational Genomics Research Institute (TGen) 
602 343 8705 (phone)
480 570 5969 (mobile)
602 343 8740 (fax)
jhao at tgen.org