I just want to get this right in my pepxml emitter: A modification_info object describes a peptide that has been modified. It has an attribute, modified_peptide where the peptide is annotated to show where the modifications occur. The modification_info object also has a child element called mod_aminoacid_mass.
The mod_aminoacid_mass has a position and a mass attribute. The documentation for the position says: "modified aminoacid position in peptide [ranging from 1 to peptide length]" Should the position of mod_aminoacid_mass specify a position on the modified_peptide string (e.g. "PE#PTI*DE", where the two positions would be 3 and 7), or does it specify an amino acid position on the unmodified peptide, i.e., the peptide attribute in the search_hit element (e.g., "PEPTIDE", where the two positions would be 2 and 5)? Thanks! -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post to this group, send email to [email protected]. To unsubscribe from this group, send email to [email protected]. For more options, visit this group at http://groups.google.com/group/spctools-discuss?hl=en.
