Umpire MS1 quantitation and feature detection analysis
The program does feature detection and assigns MS1 intensity to pep IDs from pepXML.
Command: command : java -jar -Xmx8G MS1Quant.jar mzMXL_file ms1quant.params PepXML_file MinProb [Option]
Options -ID Detect identified feature only
Ex: java -jar -Xmx15G Umpire-MS1Quant/Umpire-MS1Quant.jar test.mzXML ms1quant.params test.pep.xml 0.7 -ID
Once the job is done, you can find the following files at the same folder where the mzXML is located. *_PepIonIDs.csv *_PSMs.csv