OpenMS
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#include <OpenMS/ANALYSIS/ID/NeighborSeq.h>
#include <OpenMS/ANALYSIS/OPENSWATH/MRMDecoy.h>
#include <OpenMS/APPLICATIONS/TOPPBase.h>
#include <OpenMS/CHEMISTRY/ProteaseDB.h>
#include <OpenMS/CHEMISTRY/ProteaseDigestion.h>
#include <OpenMS/CHEMISTRY/ResidueDB.h>
#include <OpenMS/DATASTRUCTURES/FASTAContainer.h>
#include <OpenMS/FORMAT/FASTAFile.h>
#include <OpenMS/MATH/MathFunctions.h>
#include <OpenMS/METADATA/ProteinIdentification.h>
#include <regex>