ISQ User Guide - Write Frame of Mind

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4 Creating a Method To use the hot needle technique, select the standard injection depth and use a pre-injection dwell time of at least 2 seconds. To use the cold needle technique, select a minimum injection depth and do not use a pre-injection dwell time. The post injection dwell time can be used to bake out the needle and ensure that all semi-volatile compounds are cleaned out of the system before the next injection is made. 4. Click the ISQ icon in the left pane to create a method for the ISQ. a. From the Method Type pull-down menu, select Acquisition. An Acquisition method is used to collect data. Note The maintenance method is used to bake out or cool down the ISQ during a sequence. This can be useful if you know you want to perform these tasks and you want to do them in an automated way as part of your data acquisition. 34 ISQ User Guide Thermo Scientific
4 Creating a Method b. Set the MS Transfer Line Temperature. This field represents the temperature of the transfer line, which is the tube that contains the column as it leaves the GC oven and enters the ISQ. The maximum allowable temperature is 400 °C. However, you will damage the column and contaminate the ISQ if you set the transfer line temperature above the maximum allowed temperature of the column. IMPORTANT You should always set the transfer line temperature in Xcalibur and NOT through the GC. c. Set the Ion Source Temperature. You can enter a value between 0 and 350 °C. The optimal temperature depends on the analyte. Higher temperatures will keep the ion source cleaner, but will lead to increased fragmentation, which may reduce sensitivity. For most compounds, a source temperature of 200 °C (default) is adequate. d. Select the Acquisition Threshold checkbox and enter a value for the minimum peak height for the data file, if needed. If your peak has an intensity that is below this threshold, it will not be stored. This setting may help reduce noise, but it may also alter the reported isotope ratios because the smaller isotope signals will be preferentially reduced. e. Select EI from the Ionization Mode pull-down menu. Note Only use CI if you have installed a CI ion volume in the ISQ and you have connected CI reagent gas to your system. If you have CI, select a CI Gas Type from the pull-down menu and set the CI Gas Flow. Typical values for NCI are 1.0 mL/min. For PCI, the gas flows are typically 1.5 mL/min. Thermo Scientific ISQ User Guide 35
Page 1 and 2:
ISQ User Guide 1R120555-0003 Revisi
Page 3 and 4: Manufacturer: Thermo Fisher Scienti
Page 5 and 6: WEEE Compliance This product is req
Page 7 and 8: Contents Thermo Scientific ISQ User
Page 9 and 10: Preface About Your System This guid
Page 11 and 12: Related Documentation Preface Relat
Page 13 and 14: Hydrogen Safety Precautions Preface
Page 15 and 16: Hydrogen Connection Guidelines Use
Page 17 and 18: Properly Storing Hydrogen Preface H
Page 19 and 20: Preface Hydrogen Safety Precautions
Page 21 and 22: Changing the Column The ISQ ships w
Page 23 and 24: Replacing the Factory-Installed Col
Page 25 and 26: 15. Perform a column leak check. 1
Page 27 and 28: j. Repeat the leak check until no l
Page 29 and 30: i. The following message will indic
Page 31 and 32: 1 Changing the Column Replacing the
Page 33 and 34: Confirming Your GC/MS System is Wor
Page 35 and 36: Checking the Vacuum and Temperature
Page 37 and 38: Tuning the ISQ Tuning will improve
Page 39 and 40: 3 Tuning the ISQ Using ISQ Autotune
Page 41 and 42: 3 Tuning the ISQ Using ISQ Autotune
Page 43 and 44: 9. Click the Print Report button to
Page 45 and 46: 3 Tuning the ISQ Tuning the ISQ wit
Page 51 and 52: Creating a Method Once you’ve got
Page 53: . Configure the Pre-Injection group
Page 57 and 58: 4 Creating a Method At 4 minutes in
Page 59 and 60: 4 Creating a Method • The Filamen
Page 61 and 62: 4 Creating a Method You can select
Page 63 and 64: 4 Creating a Method Finally, if you
Page 65 and 66: If you have a FOCUS GC: 4 Creating
Page 67 and 68: 4 Creating a Method c. Click the Ca
Page 69 and 70: 4 Creating a Method 6. When you are
Page 71 and 72: Running a Sample Preparing Your Sam
Page 73 and 74: 5 Running a Sample Running a Sequen
Page 83 and 84: e. Configure the Run Synchronously
Page 85 and 86: Exploring Your Data Once you have a
Page 87 and 88: 6 Exploring Your Data 5. The chroma
Page 89 and 90: 6 Exploring Your Data 8. Right-clic
Page 91 and 92: 6 Exploring Your Data 12. In this s
Page 93 and 94: 6 Exploring Your Data The full scan
Page 95 and 96: Optimizing Your Method If you did n
Page 97 and 98: Modifying an Automatic Tune 7 Optim
Page 99 and 100: 6. Configure the General tab. • N
Page 101 and 102: 7 Optimizing Your Method Modifying
Page 103 and 104: 7 Optimizing Your Method Modifying
Page 105 and 106:
7 Optimizing Your Method Modifying
Page 107 and 108:
7 Optimizing Your Method Modifying
Page 109 and 110:
Troubleshooting This section contai
Page 111 and 112:
Investigating Baseline Issues Table
Page 113 and 114:
Table 3. Troubleshooting Peak Issue
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Table 3. Troubleshooting Peak Issue
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Table 4. Troubleshooting Results Is
Page 119 and 120:
8 Troubleshooting Reconfiguring You
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Page 123 and 124:
Page 125 and 126:
16. Click the Done button to close
Page 127 and 128:
Index A acquisition methods, purpos
Page 129 and 130:
tune report, 22, 29 tune types addi
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