You can process MudPIT samples by using a processing method.
Procedure
- Start the Daemon utility and export a parameter file for MudPIT processing. For information about exporting a parameter file, see Run the Daemon utility from a parameter file.
- The following figure shows how to configure the Export Parameter File page in the utility to export a parameter file. In this example, the parameter file is saved in C:\Xcalibur\methods.
- This example features two MudPIT samples. Each one consists of two raw data files (for a total of four raw data files).
- Define a processing method (see Create a processing method that calls the Daemon utility from the Xcalibur data system) using the parameter file exported in step 1, and select the method as the processing method in the Proc Meth column.
- Start processing the MudPIT samples in the Run Sequence dialog box.
- The utility processes the two samples as MudPIT.
- The Proteome Discoverer application saves the data in the two MudPIT samples in two directories, each one containing the raw data files of one MudPIT sample (in this example, two raw data files).