|Title||»||Transition list import should pick modified sequence column over bare sequence column|
We now load the entire transition list into memory for transition list import and use a ModificationMatcher to guess modifications found in the the sequence column. However, we still have an issue where, if the transition list contains a bare sequence column before a modified sequence column, Skyline will use the bare sequence column and attempt to guess modification location with much less information than it could have if it used the modified sequence column.
Attached is a transition list from Ben Collins where this causes Skyline to guess methionine oxidation incorrectly. Now that we bring everything into memory, we should fix the code to find all usable sequence columns and then prioritize using a modified sequence column over a bare sequence column.