atmospheric effects suppressing, 94, 117 ATR, 205 baseline tilted due to change in depth of penetration, 199 crystal cutoff frequency, 208 derivative peaks, 132 fringes, 132 ATR correction, 205 attenuated total reflectance, 205 Automatic Baseline Correct, 204 how to use, 204 Automatic Full Scale, 181 how to use, 182 Automatic Region Subtract, 216 how to use, 216 Automatic Smooth, 220 how to use, 220 auxiliary experiment module (AEM), 125 Avatar spectrometer aperture for, 124 data collection prevented, 14 validation wheel, 144 Average, 239 How to use, 239 average Y value of group of spectra, 240 average Y value of spectrum or spectral region, 239 axes displaying, 165 font for, 82 labels color, 80 printing font for, 86 redoing changes to limits of, 162 thickness of when printed, 84 undoing changes to limits of, 161 units converting, 187 b background checks, 128 sensitivity, 129 background color pane, 81 background handling, 87 background scans number of in sampling information, 100, 172 background spectra checking for carbon dioxide or water, 135 background spectrum, 17 age, 149, 153, 156 checking for accessory, 135 checking for contamination, 134 checking for detector icing, 134 checking quality of, 128 collecting, 119, 154, 155 accessory for, 157 checking for carbon dioxide or water after, 135 checking for contamination after, 134 checking for detector icing after, 134 measuring noise or peak intensity during, 156 pausing, 157 progress of, 155 resolution for, 116 current, 156 data spacing, 153 defined, 155 displaying, 158 ratioing sample spectrum using different, 194 resolution, 153 sample spectrum divided by, 150, 155 saving, 158 spectral quality, 159 stored, 119 unable to collect, 156 bandwidth for Fourier self-deconvolution, 216 baseline checking in sample spectra, 133 corrected in library spectra, 283 correcting, 197 algorithm for, 200 automatically, 204 before library search, 262 benefits of, 199 selecting points for, 199 curved, 198 defined, 198 factors affecting, 198 shifted, 198, 199 tilted, 198, 199 Baseline Correct, 197 how to use, 200 beam path, 147 beamsplitter aligning interferometer after installing, 143 background spectrum affected by, 155 collecting background spectrum after changing, 155 configuring system after installing, 144 for collecting spectra, 126 spectral range, 127, 134 type in sampling information, 100, 172 shown in report, 298 Beer-Lambert law, 212 Bench Status indicator, 14 making available, 89 bitmap format copied item in, 70 cut item in, 70 Blank, 207 compared with Straight Line, 208 how to use, 208 blanked spectral regions restored by Reprocess, 195 box drawing around printed spectra, 84 boxcar apodization, 138 button toolbar, 107 322 Thermo Nicolet
c carbon dioxide and collecting background spectrum, 155 checking background spectra for, 135 checking current background spectrum for, 158 checking sample spectra for, 133 correcting spectrum for, 206 library spectra corrected for, 283 reference spectrum, 92, 206 collecting, 93 suppressing effects of, 117 adding reference spectra for, 94 Cascade Windows, 320 how to use, 320 cascading windows on screen, 320 cast films, 132 CH stretch region, 131 Change Data Spacing, 220 how to use, 221 channeling checking sample spectra for, 131 chemical structure adding to report template, 299, 301 drawing, 285 choosing commands, 13 Clear, 72 how to use, 72 Clipboard adding contents of to report template, 297 copying list of found peaks to, 236 format of item copied to, 70 pasting item from, 71 placing items on using Copy, 70 using Cut, 69 Close button, 14, 45 Close Log, 64 how to use, 65 closing log, 65 spectral window, 15 task windows automatically, 91 Collect Background, 154 how to use, 157 Collect menu, 111 Collect options, 86 Collect Sample, 148 how to use, 151 Collect Status indicator, 129, 148, 156 collecting background spectrum, 119, 154, 155 accessory for, 157 checking for carbon dioxide or water after, 135 checking for contamination after, 134 checking for detector icing after, 134 measuring noise or peak intensity during, 156 pausing, 157 progress of, 155 resolution for, 116 carbon dioxide reference spectrum, 93 sample spectrum, 148 spectrum, 148 accessory for, 135 and adding to user library, 278 aperture size for, 123 aperture too large to achieve resolution for, 88 apodization checked for, 134 apodization for, 137 auxiliary experiment module for, 125 beamsplitter for, 126 checking background spectrum for accessory before, 135 checking baseline after, 133 checking for carbon dioxide, 133 checking for derivative peaks after, 132 checking for fringes or channeling after, 131 checking for peaks after, 130 checking for totally absorbing peaks after, 130 checking for water after, 133 checking interferogram amplitude for, 135 correction for, 117 data spacing for, 115 detector for, 125 example experiments for, 112 extension for, 118 gain for, 123 GC interface for, 125 high pass filter for, 140 low pass filter for, 139 measuring noise or peak intensity during, 149 microscope for, 125 normalizing frequency automatically after, 88 number of scans for, 115 parameter settings for, 146 pausing, 150 phase correction for, 139 printing information for, 149 progress of, 148 prompting to insert or remove sample for, 87 purging during, 152 resetting spectrometer before, 141 resolution checked for, 134 resolution for, 116 sample location for, 125 sample shuttle for, 126 sample spacing for, 138 saving data automatically after, 118 Seaport for, 125 selecting experiment for, 111 setting parameters for, 113 single-sided interferograms for, 140 Smart Accessory for, 126 source for, 126 spectral quality checks for, 127 spectral range checked for, 133 spectral range for, 127 spectrum automatically placed in new spectral window after, 87 starting with external trigger, 141 OMNIC User’s <strong>Guide</strong> 323
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The information in this publication
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Peak area tool.....................
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Checking spectrometer performance a
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Process............................
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Selecting, editing or creating a re
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How to use this manual This manual
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• If you do not have the DS optio
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Note If you have the DS option, you
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Digital signature information in a
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There are several ways to enter the
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Note Some tutorials are available o
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Note If you are using Windows 2000
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Panes A pane is an area of the spec
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Displaying a list of spectrum title
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Displaying a different spectral reg
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Copying information to the Clipboar
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Note You can select all the display
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Next, hold down the Shift key and c
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Region tool Some OMNIC commands can
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You can position the annotation tex
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You can position the annotation by
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2. Click the Annotate button to the
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The corrected area is bordered by t
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2. Edit the label text if desired.
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Overlaying spectra lets you see sig
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When you hide a stacked spectrum, a
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If a pane containing a spectrum is
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46 Thermo Nicolet
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File Type Extension Comments Spectr
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The settings available in the Y Uni
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If Put Opened Spectrum In New Windo
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3. If the Save As dialog box appear
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2. Choose Save Group from the File
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2. Locate and select the desired fi
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Save a configuration This procedure
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A dialog box appears. 2. Type a use
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Note The Enable OMNIC Log-In comman
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Note If a spectrum has been pasted
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Delete files 1. Choose Delete Files
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When you cut a displayed stacked sp
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Pasting duplicate images of spectra
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Note The options you set using Opti
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File Type Initial Spectra Initial E
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Normalize the spectra of standards
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In the upper-left corner of the dia
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Type Annotation Axis Labels Axis Nu
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Specifying how to print axes The op
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Text Type Annotation Axis Labels Ax
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Note If you have turned off Prompt
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Setting Smart Purge The Smart Purge
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Specifying how to list peaks found
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4. Collect a sample spectrum with n
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To specify or do this... The X-axis
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Turn on Display All Annotation if y
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Item Company Name Spectrum Title Da
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Preventing the overwriting of files
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State Enabled Disabled Hidden Descr
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6. If you disabled or hid the Save
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5. Specify the size of the toolbar
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Note You can create an image for a
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The experiment you select also sets
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Note The experiment you select also
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Note If you are studying samples th
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When deciding whether to use this f
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Titling the experiment Bench featur
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The peak-to-peak intensity is the s
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• It helps prevent infrared energ
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Specifying the beamsplitter type If
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The parameter checks appear when yo
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The individual checks are described
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Fringes result when back reflection
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A beamsplitter, detector, source or
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Type the desired minimum peak-to-pe
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Setting Boxcar N-B* Weak N-B* Mediu
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As an example, for a standard DTGS
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If you have installed a Smart Acces
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• Install a 32-bit version of OMN
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• To save the settings in the cur
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The positive settings move your vie
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What happens during collection? The
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3. Choose Collect Sample from the C
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Note To store the spectrum on the h
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Viewing the age of the background D
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If Preview Data Collection is turne
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If at any time the system condition
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Undo a display limit change Choose
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To specify this or do this... The n
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To remove the grid from a spectral
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Note You can display annotations ve
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This format is suitable for high re
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Specifying the sampling information
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Stacked spectra Stacking spectra is
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Full Scale brings the highest data
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Match the Y-axis scale of a spectru
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Display spectra vertically offset 1
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Display spectra full scale automati
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Displaying and using a toolbar Use
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Converting spectra to absorbance Us
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The units are described in the next
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The photoacoustic value (PAS) at a
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Micrometers Select Micrometers to c
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4. Choose OK. • If you selected K
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• To change the final format. You
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What is a baseline? A baseline cons
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Important Be careful not to introdu
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The X and Y values of the point app
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8. When you are finished correcting
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Before searching an ATR spectrum ag
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• A spectrum includes the region
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Replacing a spectral region with a
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Subtracting spectra Use Subtract in
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2. Choose Subtract from the Process
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Subtracting a component or contamin
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Note If negative peaks appear in th
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3. Select the desired number of smo
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Converting spectra to their first o
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Multiplying a spectrum by a number
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Symbol Meaning Examples / Divide. A
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• To change the factor using the
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Here is the normalized spectrum: In
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Normalize the scale of spectra 1. S
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Example libraries The following sec
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Click the Print button in the Find
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6. To display or remove the Y-axis
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3. Choose Average from the Process
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Range of Y values versus X value Pe
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4. If you are not using the search
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Using extended search The Extended
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When you perform the search, the ex
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All the QC libraries and library gr
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Set up a spectral search (The proce
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7. Specify the number of found libr
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5. Specify the spectral regions to
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Search a spectral library 1. Use Li
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If you did not use the search exper
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To print the search expert’s comm
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Color-coded titles of the spectrum
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To print the spectrum and functiona
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You can choose Overlay Spectra from
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Working with libraries Click the Li
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- Page 288 and 289: • If you are adding more than one
- Page 290 and 291: 3. Click the name of the library. T
- Page 292 and 293: 9. Choose Search. The search result
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- Page 296 and 297: 2. Click the Create/Edit Structures
- Page 298 and 299: If you want to print the informatio
- Page 300 and 301: When you are ready to start printin
- Page 302 and 303: You can only add the spectrum to a
- Page 304 and 305: 3. If you want to reset the data co
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- Page 310 and 311: 3. Specify the item type by selecti
- Page 312 and 313: 5. Choose Preview/Print Report from
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- Page 318 and 319: 7. Close the Report Template window
- Page 320 and 321: Adding a report to a notebook Use A
- Page 322 and 323: To view a report notebook, use View
- Page 324 and 325: Searching for text Click the Search
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- Page 328 and 329: 5. To search for reports that conta
- Page 330 and 331: Note When windows are tiled, they m
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- Page 336 and 337: detector interface kit, 123 detecto
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- Page 342 and 343: OMNIC Atlµs default directory, 76
- Page 344 and 345: Process options, 90 Protégé spect
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