On the Add/Edit Target m/z tab, you can specify the processing mode, charge state range, number of isotopes, and m/z range that the application uses to generate theoretical components.

Prerequisites

  1. You are viewing the Theoretical Protein/Peptide Manager.

Procedure

  1. Select the Add/Edit Target m/z tab in the Theoretical Protein/Peptide Manager.
  2. Add/Edit Target m/z pane
    Figure Add/Edit Target m/z pane
  3. Select one of the processing modes described in the table below.
Target m/z processing modes in the Theoretical Protein/Peptide Manager

Processing mode

Component generation

Parameter application

Process Sequence from Above Input Box (default)

Components in the Results table are generated using the original sequence added to the Theoretical Protein/Peptide Manager.

Parameters on the Add/Edit Target m/z tab are globally applied to the original sequence during theoretical component generation.

Batch Process All Peptides from Results Table

To enable this processing mode, first generate theoretical components using the Process Sequence from Above Input Box (default) mode.

Then, reprocess the component results using the Batch Process All Peptides from Results Table mode.

Parameters on the Add/Edit Target m/z tab are globally applied to theoretical components initially generated from the Process Sequence from Above Input Box (default) mode.

Process Individual Selected Peptide from Results Table

To enable this processing mode, first generate theoretical components using the Process Sequence from Above Input Box (default) mode. Then, select a component row in the Result table. The selected component appears in the adjacent read-only box.

Then, reprocess the specified component result using the Process Individual Selected Peptide from Results Table mode.

Parameters on the Add/Edit Target m/z tab are applied to a single user-specified theoretical component initially generated from the Process Sequence from Above Input Box (default) mode.

  1. In the Charge State Range boxes, specify the range of charge states generated for the theoretical components.
  2. In the Number of Isotopes box, specify the number of isotopes generated for each charge state for the theoretical components.
  3. In the m/z Range boxes, type the lower and upper values for the m/z range of the theoretical components.