Hi, I am emailing regarding a java program that I am writing which deals with the in silico manipulation of cross-linked peptides.
I would like to manipulate protein sequences by taking into account variable modifications using BioJava classes (if possible). For example: If I have the following variable modification: hydroxo-BS2GD4 (N-term, K): 118.0563805 And the following sequence: FLEKQNKER (assuming it contains the N-term) I need to generate the following sequences FLEKQNKER -> FLEKQNKER, FLEKhydroxo-BS2GD0QNKER, FLEKQNKhydroxo-BS2GD0ER, FLEKhydroxo-BS2GD0QNKhydroxo-BS2GD0 ER, Fhydroxo-BS2GD0LEK QNKER and so on - generating a total of 8 peptide sequences with different masses. Is there a way i can generate these additional sequences using BioJava? Any help would be mostly appreciated. - Salman _______________________________________________ Biojava-l mailing list - [email protected] http://lists.open-bio.org/mailman/listinfo/biojava-l
