Scan Types - Stellar MS - Stellar Mass Spectrometer Operating Manual - Software - Scan Parameters - Scan Types - Stellar MS

Stellar Mass Spectrometer Operating Manual
Product Tree
Mass Spectrometry > LC-MS Mass Spectrometers > Stellar MS
Document Type
Operating Manual
Software version
1.0 QF1
  • Stellar Mass Spectrometer
  • Preface
  • Access Documentation
  • Use the Data System Computer
  • Open the Help System
  • Special Notices, Symbols, and Cautions
  • Contact Us
  • Introduction
  • Stellar MS
  • Overview of an LC/MS Analysis
  • Ionization Modes
  • ESI Modes (H-ESI and ESI)
  • H-ESI Mode for Analysis
  • ESI Mode for Auto-Ready Calibration
  • APCI Mode
  • APPI Mode
  • NSI Mode
  • Hardware Components
  • External Features
  • Dimensions and Weight
  • Exterior Panels
  • LED Indicators
  • Communications Panel
  • Power Entry Module
  • Cooling Fans
  • Ion Optics
  • Main Components
  • Vacuum System and Inlet Gases
  • Vacuum Pumps
  • Vacuum Manifold
  • Vacuum Gauges
  • Inlet Gas Supply Hardware
  • Gas Specifications
  • Helium Gas Regulator
  • Nitrogen Gas Valves
  • Sheath Gas, Auxiliary gas, and Sweep gas
  • Vent Valve
  • API Source
  • Compatible Ion Sources and Interfaces
  • API Source Interface
  • Ion Sweep Cone
  • Spray Cone
  • Ion Transfer Tube
  • Heater Block
  • Vent Prevent Ball
  • RF Lens and Exit Lens
  • MP00 Ion Optics
  • MP0 Ion Optics
  • Mass Analyzers
  • Quadrupole Mass Analyzer
  • Mass Analysis
  • Applied RF and DC Fields
  • Quadrupole Offset Voltage
  • Linear Ion Trap Mass Analyzer
  • Overview
  • Axial Trapping Voltages
  • AC Voltages Applied to the X-rods
  • Helium Damping Gas
  • Ion Concentrating Routing Multipole
  • Collision Cell and HCD Efficiency
  • Quadrupole Offset Voltage
  • MP3 Ion Optics
  • Ion Detection System
  • Software
  • Tune Application
  • Tune Application Window
  • Buttons and Icons
  • Open the Plot Chromatogram Dialog Box
  • Parameters in the Plot Chromatogram Dialog Box
  • Chromatogram View
  • Spectrum View
  • Parameters in the Spectrum View
  • Data Acquisition Controls
  • Options Menu
  • Tune Preferences
  • Parameters in the Tune Preferences
  • Generate Reports
  • Tune Panes
  • Ion Source Pane
  • Define Scan Pane
  • Calibration Pane
  • Status Area
  • Calibration Area
  • Instructions Area
  • Status Pane
  • History Pane
  • Favorites Pane
  • Diagnostics Pane
  • Alerts Console
  • Specify the Alert Settings
  • Alerts Console Control Options
  • Method Editor Application
  • Open the Method Editor Application
  • Global Parameters Page
  • Scan Parameters Page
  • Method Layouts and Templates
  • Quan View
  • Add a Scan Type to the Experiment Workflow
  • Hybrid View
  • Add a Scan Type to the Experiment Workflow
  • Templates View
  • Save a Custom Template
  • To Set the Recommended API Source Settings
  • Check API Source Settings for the LC Flow Rate
  • H-ESI Source Settings
  • APCI Source Settings
  • NSI Source Settings
  • Scan Parameters
  • Scan Types
  • Full Scan
  • SIM Scan
  • MSn Scan
  • SRM Scan
  • Ion Polarity Modes
  • Data Types
  • Data Acquisition
  • Use the Xcalibur Data System to Acquire Data
  • Select the Start Instrument
  • Use the Tune Application to Acquire Data
  • MongoDB Database
  • Set the Historical Data Retention
  • iAPI License
  • Installation
  • To Connect the Forepump to the Vacuum System
  • Connect the Forepump to the MS
  • Connect the Forepump to the Lab Exhaust System
  • Connect the Drainage System on the MS
  • Connect the Nitrogen and Helium Gas Lines
  • To Set up the Syringe Pump and Divert/inject Valve
  • Syringe Pump
  • Set up the Syringe
  • Divert/inject Valve
  • Configurations
  • Divert/inject Valve Controls
  • Set up the Syringe Pump and Divert/inject Valve Holding Bracket
  • Connect the Cables and Power Cords
  • Control an External Device using Contact Closure
  • To Set up the API Source
  • Remove the API Source
  • Install or Remove the Ion Sweep Cone
  • Install the API Source
  • Prepare the Spray Insert for the API Source
  • H-ESI spray insert
  • APCI Spray Insert
  • Remove or Install the API Spray Insert
  • Spray Insert Position and Adjustments
  • Adjust the Spray Insert Position
  • Auto-Ready Enclosure
  • Check the Auto-Ready Components
  • To Connect the Inlet Plumbing
  • Guidelines for PEEK Tubing and Fittings
  • Plumbing Schematic Overview
  • Plumbing Setups for an HPLC
  • Set up the Plumbing for a H-ESI Configuration
  • Set up the Plumbing for an APCI Configuration
  • Set up the Plumbing for Direct Infusion
  • Set up the Plumbing for High-flow Infusion (without an autosampler)
  • Plumbing Setups for Manual Loop Injections (flow-injection analysis)
  • Set up the Loop Injection Plumbing for a H-ESI Configuration
  • Set up the Loop Injection Plumbing for an APCI Configuration
  • Operation
  • Mobile Phase Buffer Guidelines
  • LC Additive Guidelines
  • System Startup, Shutdown, and Reset
  • On/Off Status of MS Components
  • To Turn on the MS
  • Turn on the MS from the Tune Application
  • Turn on the MS from the Data System
  • Place the MS in Standby Mode
  • Shut Down the MS
  • Shut Down the MS in an Emergency
  • Restart the MS
  • Reset the MS
  • Daily Operation
  • Before Operating the MS
  • Check the Vacuum Pressure Levels
  • Find and Fix Air Leaks
  • Check the Gas Supplies
  • After Operating the MS
  • Flush the Inlet Components
  • Empty the Solvent Waste Container
  • Place the System in Standby Mode
  • Calibration
  • Calibration Overview
  • Pierce FlexMix Calibration Solution Peak Values
  • Auto-Ready Calibration
  • Prepare the Auto-Ready Hardware for Calibration
  • Calibrate using Auto-Ready
  • Calibration in ESI Mode using a Syringe Pump
  • Set up the MS for Calibration
  • Establish a Stable Ionization Spray
  • Calibrate in ESI Mode
  • To Flush the Inlet Components After Calibration
  • Recommended Supplies
  • Flush the Inlet Components
  • Maintenance
  • Guidelines
  • Tools and Supplies
  • Maintenance Schedule
  • Maintain the API Source Housing
  • To Maintain the External Components of API Source Interface
  • To Maintain the Ion Sweep Cone
  • Remove the Ion Sweep Cone
  • Clean the Ion Sweep Cone
  • Reinstall the Ion Sweep Cone
  • To Maintain the Ion Transfer Tube
  • Remove the Ion Transfer Tube
  • Clean the Ion Transfer Tube
  • Reinstall the Ion Transfer Tube
  • Maintain the Spray Cone and O-ring
  • To Maintain the Internal Components of the API Source Interface
  • Remove the API Source Interface
  • Remove the RF Lens, Exit Lens, MP00 RF Rods, and L0 Lens
  • Clean the RF Lens, Exit Lens, MP00 RF Rods, and L0 Lens
  • Reinstall the RF Lens and Exit Lens
  • Reinstall the MP00 RF Rods and L0 Lens
  • Reinstall the API Source Interface
  • Clean the Air Filter
  • Replace the Auto-Ready Calibration Solution Vial
  • Replaceable Parts
  • Preinstallation Kit
  • Chemical Kit
  • UHPLC/MS Installation Kit
  • Installation Kit
  • Calibration Kit
  • Accessory Kit
  • Setup Kit
  • High Volume Dry Pump Kit
  • API Source Interface
  • Miscellaneous
  • Legal Notices
  • Copyright and Trademarks
  • Regulatory Compliance
  • Regulatory Compliance Results
  • FCC Compliance Statement
  • Notice on the Use and Handling of Thermo Scientific Instruments
  • WEEE Directive 2012/19/EU
  • Glossary

The MS can operate using a variety of scan types. For details on each scan type, see the following topics:

  • Full Scan
  • SIM Scan
  • MSn Scan
  • SRM Scan
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