Hi all, I am a student for this year Google Summer of Code. We are working on developing tools and APIs for the calculation of physico-chemical properties via BioJava.
We have come to an end of the second phase of this project. In the first two phase of the projects, we have developed APIs, test the APIs and also wrote up documentation (in Cookbook of BioWiki under "Physico-Chemical Proerties Computation"). We are writing this email to invite for comments/suggestions on the project. The next few phases of the project can be found here ( http://biojava.org/wiki/GSoC:AAPropertiesComputation#Timeline). Previously, it was suggested in this mailing list that we should allow users to define the mass of amino acids instead of always using the standard mass. We have done so and have documentation on how to do it here ( http://biojava.org/wiki/BioJava:CookBook:AAPROP:xmlfiles). However, we face a problem here regarding the definition of modified amino acids. That is in the class of ProteinSequence, it ensures a symbol must be define in AminoAcidCompoundSet. This would limit the possibilities in defining the symbol for modified amino acids. Looking forward to hear from you guys, AAPropertiesComputation Team Student: Chuan Hock KOH Mentors: Peter Troshin & Andreas Prlic -- http://compbio.ddns.comp.nus.edu.sg/~ChuanHockKoh<http://compbio.ddns.comp.nus.edu.sg/~ChuanHockKoh/index.html> _______________________________________________ Biojava-l mailing list - [email protected] http://lists.open-bio.org/mailman/listinfo/biojava-l
