The following advanced command instructs Byos to assign reference masses from the Protein or Sample-protein input even if there are no detectable peaks in the deconvolved mass spectrum for the reference mass.
ForceShowMassesOfInterest = 1
The ForceShowMassesOfInterest advanced command can be applied during project creation by entering the command under Processing nodes -> Advance configuration and entering the command in the text box.
The advanced command can also be applied after project creation. Open the Intact Byos project, click Edit>Advance configuration..., enter the command into the Advanced configuration text box, and click OK.