Thermonicolet Omnic Software User's Guide 6.1 (PDF) - Charles E ...

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6. To display or remove the Y-axis from the window, choose Y-axis. 7. To print the spectrum and a table of the labeled peaks below it, choose Print. 8. To copy a table of the labeled peaks to the Windows Clipboard, choose Clipboard. 9. To replace the original spectrum with the labeled result spectrum or add the result to a spectral window, select the desired option from the window selection box at the top of the Find Peaks window and then choose Add or Replace. To close the Find Peaks window without placing the result spectrum into a spectral window, click its Close button. The results are added to the log when you close the window. Measuring noise Use Noise in the Analyze menu to measure the noise in the selected spectral region of a spectrum (or in the displayed region if no region is selected). Both peak-to-peak and root mean square (rms) noise are measured. The noise level of a spectrum depends on many factors, including the spectrometer, detector type, experiment parameter settings and the physical surroundings of the system. Peak-to-peak noise is the difference between the highest and lowest noise peaks in the selected spectral region. Before measuring the noise, the software corrects any baseline tilt using a least-squares correction method. An rms noise measurement is a statistical analysis of the noise variation. The rms noise level is equal to the square root of the average of the squares of the data points in the selected spectral region. If you are studying samples that produce very small spectral peaks or have weak spectral features, or if you are looking for small changes in your samples, make sure the signal-to-noise ratio is high enough to let you distinguish spectral features from the noise inherent in all experimental data. This prevents the signals containing spectral information from being lost among the signals generated by the random movement of electrons, building vibrations, light source fluctuations and other sources. Calculate the noise in a spectral region or spectrum 1. Select the spectrum. 2. Use the region tool to select a spectral region that has a flat baseline and no sample peaks. Any sample peaks in the region will be interpreted as noise and produce inflated results. A commonly used region is 2050 to 1950 wavenumbers. If you don’t select a spectral region, the entire displayed region will be used to calculate the noise levels. 238 Thermo Nicolet
The following example shows a suitable region selected. 3. Choose Noise from the Analyze menu. The Noise dialog box shows the peak-to-peak and rms noise levels and the X-axis limits of the region. 4. When you are finished viewing the noise level, choose OK. The noise results are added to the log if you are currently logging operations and can be printed later. Finding the average Y value of a spectral region Use Average in the Analyze menu to find the average Y value of the data points in the selected spectral region of a spectrum (or in the displayed region if no region is selected). Find the average Y value of a spectral region 1. Select the spectrum you want to measure. 2. Display or select the spectral region for which you want to find the average Y value. The Average command works on the selected spectral region or on the currently displayed region if no region is selected. To select a spectral region, use the region tool. To display a spectral region, use the view finder, selection tool or Roll/Zoom window. OMNIC User’s <strong>Guide</strong> 239
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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
Page 198 and 199: The units are described in the next
Page 200 and 201: The photoacoustic value (PAS) at a
Page 202 and 203: Micrometers Select Micrometers to c
Page 204 and 205: 4. Choose OK. • If you selected K
Page 206 and 207: • To change the final format. You
Page 208 and 209: What is a baseline? A baseline cons
Page 210 and 211: Important Be careful not to introdu
Page 212 and 213: The X and Y values of the point app
Page 214 and 215: 8. When you are finished correcting
Page 216 and 217: Before searching an ATR spectrum ag
Page 218 and 219: • A spectrum includes the region
Page 220 and 221: Replacing a spectral region with a
Page 222 and 223: Subtracting spectra Use Subtract in
Page 224 and 225: 2. Choose Subtract from the Process
Page 226 and 227: Subtracting a component or contamin
Page 228 and 229: Note If negative peaks appear in th
Page 230 and 231: 3. Select the desired number of smo
Page 232 and 233: Converting spectra to their first o
Page 234 and 235: Multiplying a spectrum by a number
Page 236 and 237: Symbol Meaning Examples / Divide. A
Page 238 and 239: • To change the factor using the
Page 240 and 241: Here is the normalized spectrum: In
Page 242 and 243: Normalize the scale of spectra 1. S
Page 244 and 245: Example libraries The following sec
Page 246 and 247: Click the Print button in the Find
Page 250 and 251: 3. Choose Average from the Process
Page 252 and 253: Range of Y values versus X value Pe
Page 254 and 255: 4. If you are not using the search
Page 256 and 257: Using extended search The Extended
Page 258 and 259: When you perform the search, the ex
Page 260 and 261: All the QC libraries and library gr
Page 262 and 263: Set up a spectral search (The proce
Page 264 and 265: 7. Specify the number of found libr
Page 266 and 267: 5. Specify the spectral regions to
Page 268 and 269: Search a spectral library 1. Use Li
Page 270 and 271: If you did not use the search exper
Page 272 and 273: To print the search expert’s comm
Page 274 and 275: Color-coded titles of the spectrum
Page 276 and 277: To print the spectrum and functiona
Page 278 and 279: You can choose Overlay Spectra from
Page 280 and 281: Working with libraries Click the Li
Page 282 and 283: Once a library is created, you can
Page 284 and 285: 3. Click the name of the user libra
Page 286 and 287: A copy of the spectrum is placed in
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
Page 294 and 295: The kinds of information displayed
Page 296 and 297: 2. Click the Create/Edit Structures
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If you want to print the informatio
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When you are ready to start printin
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You can only add the spectrum to a
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3. If you want to reset the data co
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Follow these general steps to creat
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Type Spectrum Comments Spectrum Cus
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3. Specify the item type by selecti
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5. Choose Preview/Print Report from
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4. If the item type is Spectral Win
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The page number of the currently di
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7. Close the Report Template window
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Adding a report to a notebook Use A
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To view a report notebook, use View
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Searching for text Click the Search
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Express dates on this tab in the fo
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5. To search for reports that conta
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Note When windows are tiled, they m
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atmospheric effects suppressing, 94
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status of, 148 time for, 115, 116,
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detector interface kit, 123 detecto
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finding peaks, 235 fingerprint regi
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special criteria for, 246 spectral
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OMNIC Atlµs default directory, 76
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Process options, 90 Protégé spect
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experiment, 114, 146 default direct
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detector, 127 filter for, 139 for c
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displaying, 14, 20, 39, 95 color fo
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text adding to report template, 297
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x X-axis, 14, 17 display limits, 17
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