The application checks the parameters that you have set for the quantification method. For reporter ion quantification, the application verifies that the method has at least two channels. For precursor ion quantification, it checks for the following:
- At least one quantification channel.
- At least one label for each quantification channel. The label can be None, which the default SILAC methods use.
- Unique label names in a channel.
- The modification of each label applied to at least one amino acid, unless you chose None for a modification.
- Each amino acid labeled only once in a channel (labels must have a defined elemental composition).
- Each label mass used only once (label masses vary by at least 1 Da).
You cannot apply changes to a quantification method unless the method meets all these criteria.