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Aria Real-Time PCR
User Manual
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Agilent Aria Real-Time PCR User Manual

Aria Real-Time PCR Software
User Manual
Revision H0, March 2021
AriaMx: For Research Use Only. Not for use in diagnostic procedures.
AriaDx: For In Vitro Diagnostic Use
Agilent Technologies
1 Getting Started with the Aria Software 14
The Aria software 15
Getting Started with the Aria Software 16
Introduction to the Aria software 16
Overview of the user interface 18
Home screen 18 Menu toolbar 18 Tabs 18 Left and right panels 18 Home/Notifications/Help icons 19 Getting Started screen 19 Experiment Notes / Project Notes 19
Help access for the Aria software 20
Help system 20 Sample experiments 21
2 Specifying Hardware and Software Settings 22
Update instrument optics 23
Change the default crosstalk correction settings 25
Set software preferences 28
Set default file name configuration 28 Create and apply analysis templates 29
3 Performing Hardware and Software Tests and HRM Calibrations 32
Run an instrument qualification test 33
Run the test 33 About the Qualification Test graphical data 34
Perform an Installation Qualification test 36
Run an HRM calibration plate (HCP) 38
Prepare the plate 38
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Run an HCP 39 If the HCP fails 40
4 Creating/Opening an Experiment 42
Overview of the Getting Started screen 43
Tools available on the Getting Started screen 44 About the Aria file types 45
Quick Start Protocol 46
How to create, set up, run, analyze, and generate reports for an experiment 46
Create a new experiment 49
Create an experiment based on experiment type 49
Create an experiment from a template 50
Create an experiment from a LIMS data file 51
Open an existing experiment 53
Save a copy of an existing experiment 54
Create a template from an existing experiment 55
Convert an experiment to a new experiment type 56
5 Selecting an Experiment Type 58
Overview of Experiment Types 59
Quantitative PCR 59 Comparative Quantitation 59 Allele Discrimination - Fluorescence Probes 60 Allele Discrimination - DNA Binding Dye with High-Resolution Melt 60 User Defined 60
The Quantitative PCR Experiment Type 61
Multiplexing quantitative PCR experiments 61 Well types for Quantitative PCR experiments 62
The Comparative Quantitation Experiment Type 63
Normalizing chance variations in target levels 63
3 Agilent Aria Real-Time PCR Program
Determining amplification efficiencies for the targets of interest and normalizer targets 64 Including biological replicates in comparative quantitation 65 Well types for Comparative Quantitation experiments 66
The Allele Discrimination - DNA Binding Dye Experiment Type 67
About HRM calibration plates 67 Well types for Allele Discrimination - DNA Binding Dye experiments 68
The Allele Discrimination - Fluorescence Probe Experiment Type 69
Well types for Allele Discrimination - Fluorescence Probe experiments 70
The User Defined Experiment Type 71
6 Setting Up the Plate 72
Overview of the Plate Setup screen 73
The plate map 74 Well type 74 Well name / Sample name 74 Target information 75 Replicate number 75 Reference dye 75 The Properties panel 76 Additional tools for setting up a plate 76
Import a plate setup 78
Select and view wells in the plate map 79
Select wells in the plate map 79 Unselect wells in the plate map 80 View details of a well or wells 80
Export the plate map image 85
Assign plate properties for a Quantitative PCR DNA Binding Dye experiment 86
Assign well types 86 Assign well names 86 Assign dyes/targets 88 Select a reference dye 89
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Assign replicates 90 Assign quantities to Standard wells 92
Assign plate properties for a Quantitative PCR Fluorescence Probe experiment 94
Assign well types 94 Assign well names 94 Assign dyes/targets 96 Select a reference dye 97 Assign replicates 98 Assign quantities to Standard wells 100
Assign plate properties for a Comparative Quantitation experiment 102
Assign well types 102 Assign well names 103 Assign sample names and biological replicates 104 Assign dyes/targets 107 Select a reference dye 108 Designate the normalizer 108 Assign replicates 109 Assign quantities to Standard wells 111
Assign plate properties for an Allele Discrimination DNA Binding Dye experiment 113
Assign well types 113 Assign well names 113 Assign sample names 115 Assign dyes/targets 117 Select a reference dye 118 Assign replicates 119
Assign plate properties for an Allele Discrimination Fluorescence Probe experiment 122
Assign well types 122 Assign well names 122 Assign sample names 124 Assign dyes/targets 126 Select a reference dye 127 Assign Alleles 128
5 Agilent Aria Real-Time PCR Program
Assign replicates 128
Assign plate properties for a User Defined experiment 131
Assign well types 131 Assign well names 131 Assign sample names and biological replicates 133 Assign dyes/targets 135 Select a reference dye 137 Designate the normalizer 137 Assign Alleles 138 Assign replicates 138 Assign quantities to Standard wells 141
7 Setting Up the Thermal Profile 142
Set up the thermal profile 143
Elements of a Thermal Profile 144 Import a thermal profile 146 Edit the thermal profile 147
Export the thermal profile image 159
8 Running and Monitoring Experiments 160
Overview of the Instrument Explorer dialog box 161
Add instruments to your network 162
Add a new instrument based on its IP address 162 Add a new instrument based on its port number 163 View information about an instrument 163
Start, stop, or pause a run 165
Start a run 165 Cancel a run 166 Pause a run 167
Monitor a run 168
Connect to the running instrument 168
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Monitor a run by viewing its progress through the thermal profile 169 Monitor a run by viewing the raw data plots 169 Change the display options for the raw data plots 170 Stop monitoring a run 172
Retrieve run data from the instrument 173
Retrieve data through the network 173 Retrieve data using a USB drive 174
Export instrument data to a CSV file 175
Export instrument data by column 175 Export instrument data by target 175 Export instrument data by wells 175
9 Setting Analysis Criteria 176
Overview of the Analysis Criteria screen 177
Toggle display of plate map wells 178
Select the wells and well types to include in analysis 179
Select wells for analysis using the plate map 179 Select wells for analysis based on well type 179
Select the targets to include in analysis 180
Select which data collection points to analyze 181
Choose a treatment for replicate wells 182
Assign an HRM calibration plate 183
Assign an HCP for new experiments 183 Assign an HCP using the HCP icon 184
10 Viewing Graphical Displays of the Results 186
Overview of the Graphical Displays screen 187
Graphs 187 Result table 188 Display options 188
7 Agilent Aria Real-Time PCR Program
Zooming 190
Configure and apply analysis templates 192
Configure an analysis template in the Analysis Term Settings dialog box 193
View the Amplification Plots 197
View data for a single data point 197 Select a fluorescence data type 198 Specify the use of smoothing 198 Adjust the graph properties 199 Adjust the baseline correction settings 199 Adjust the crosstalk correction settings 201 Select the scale (linear or log) of the Y-axis 206 Manually adjust threshold fluorescence values 207 Adjust threshold fluorescence values by altering the algorithm settings 209 Lock or unlock the threshold fluorescence values 210
View the Melt Curve - Raw/Derivative Curve 212
About raw/derivative curves 212 View data for a single data point 213 Select a fluorescence data type 213 Adjust the graph properties 214 Specify the use of smoothing 214 Normalize the fluorescence values 214 Adjust the range of the X-axis 215 Adjust product melting temperature settings 216
View the Melt Curve - Difference Plots 218
About difference plots 218 Select a fluorescence data type 220 Assign the control target 220 View data for a single data point 221 Manually assign Unknowns to a genotype call 221 Adjust the graph properties 224
View the Standard Curve 225
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View data for a single data point 225 Select a fluorescence data type 226 View the R-squared values, slopes, and amplification efficiencies 227 Adjust the graph properties 228 Manually adjust threshold fluorescence values 228 Display and adjust confidence intervals 229
View the Relative Quantity 230
About relative quantities 230 Select a fluorescence data type 231 Set the Y-axis scale for the Relative Quantity chart 231 Add error bars to the Relative Quantity chart 232 Adjust the graph properties 232 Select the algorithm method 232 Enter the amplification efficiencies for the targets 233
View the Allele Determination graph 235
View data for a single data point 235 Select data type and fluorescence type to display 236 Display genotype groups on the graph 237 Adjust the graph properties 238 Adjust the last cycle 238 Rename the genotype groups 239
Customize graph properties 240
Customize graph properties using the short-cut menu 240 Customize graph properties using the Graph Properties dialog box 243
11 Generating Reports and Exporting Results 252
Generate report of results 253
View a preview of the report 253 Select report type 253 Generate the report 253 Configure the report 254 Create or edit report configuration definitions 257
9 Agilent Aria Real-Time PCR Program
Export data/results to an Excel, text, LIMS data, or RDML file 260
Configure the file and export data 260 Load a saved data export definition 264 Create or edit data export definitions 265
12 Creating and Setting Up an MEA Project 268
Quick Start Protocol 269
How to create, set up, analyze, and generate reports for a multiple experiment analysis
project 269
Overview of multiple experiment analysis 270
Applications 270 Restrictions 271
Guidelines for Comparing Cq Values Across Experiments 272
Reducing plate-to-plate variability 272 Selecting a method for setting threshold fluorescence levels 273
Create an MEA project 275
Open an existing MEA project 276
Select experiments for a project 277
Add or remove experiments from the project 277 Include or exclude experiments in the project analysis 278
Edit the plate setup of experiments in a project 279
Select an experiment to edit 279 Differentiate between targets across experiments 279 Edit plate properties 280
View the thermal profiles of experiments in a project 281
13 Analyzing Multiple Experiment Analysis Project Results 282
Set analysis criteria for a project 283
Toggle display between one experiment and all experiments 283 Select the wells and well types to include in analysis 283 Select the targets to include in analysis 284
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Select which data collection points to analyze 284 Choose a treatment for replicate wells 285
Overview of the Graphical Displays screen for a project 286
Graphs 286 Result table 287 Display options 287 Zooming 289
Compare amplification plots in a project 291
Compare amplification plots by experiment 291 Compare amplification plots by target 291 Consolidate the amplification plots 292
Compare raw or derivative melt curves in a project 293
Compare raw or derivative melt curves by experiment 293 Compare raw or derivative melt curves by target 294 Consolidate the raw or derivative melt curves 294
Compare standard curves in a project 295
Compare standard curves by experiment 295 Compare standard curves by target 296 Consolidate the standard curves 296
Compare Relative Quantity charts in a project 297
Compare relative quantities by experiment 297 Compare relative quantities by target 298 Consolidate the relative quantities 298
Compare Allele Determination graphs in a project 299
14 Generating Multiple Experiment Analysis Reports and Exporting Results 300
Generate report of MEA project results 301
View a preview of the report 301 Select report type 301 Generate the report 301 Configure the report 302
11 Agilent Aria Real-Time PCR Program
Create or edit report configuration definitions 305
Export MEA data/results to an Excel, text, or LIMS data file 308
Configure the file and export data 308 Load a saved data export definition 311 Create or edit data export definitions 312
15 “How-To” Examples for Multiple Experiment Analysis Projects 314
Example 1 315
How to find the initial template quantity of a target in an unknown sample using a standard curve
from a separate experiment 315
Example 2 317
How to normalize target quantities in Unknown and Calibrator wells using a normalizer target from a
separate experiment 317
16 Help for the Aria ET (Electronic Tracking) Software 320
Overview of the Aria ET software 321
Open an experiment in the Aria ET software 323
Open an experiment 323
Import and export experiments in the Aria ET software 326
Import experiments into the database 326 Export experiments from the database 326
Lock or log out of the Aria ET software 328
Lock the program 328 Log out of the program 328
Change your password in the Aria ET software 330
Create a multiple experiment analysis project in the Aria ET software 331
Manage users in the Aria ET software 332
Set account properties for all users 332 Manage user accounts 335
Archive and restore experiments in the Aria ET software 339
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Archive experiments 339 Restore experiments 341
View audit trails and system logs in the Aria ET software 343
View the audit trail logs 343 View the system logs 346
Add and remove databases in the Aria ET software 348
Add an Aria ET database 349 Remove an Aria ET database 350
View transaction logs in the Aria ET software 352
View transaction logs for primary database 352 View transaction logs for an archive database 353
17 Reference Help and Troubleshooting & Support 354
QPCR Glossary 355
Experiment Type and QPCR Detection Chemistry Terms 355 Well-Types 357 Analysis Terms 358
LIMS File Format for Aria Software 361
Plate Setup 361 Experiment Setup 363 Thermal Profile 363 Default Optical Module 364 Threshold Fluorescence 364
Trademarks 366
Troubleshooting and Support 367
Troubleshooting Guide Contact Agilent Technical Support 370
13 Agilent Aria Real-Time PCR Program
1 Getting Started with the Aria Software

The Aria software 15 Getting Started with the Aria Software 16

Introduction to the Aria software 16
Overview of the user interface 18
Home screen 18 Menu toolbar 18 Tabs 18 Left and right panels 18 Home/Notifications/Help icons 19 Getting Started screen 19 Experiment Notes / Project Notes 19
Help access for the Aria software 20
Help system 20 Sample experiments 21
Agilent Technologies
1 Getting Started with the Aria Software

The Aria software

The Aria software
The Aria software features a variety of experiment type options with customized plate and thermal profile setup, and experiment analysis screens that streamline the process of collecting and analyzing data for specific applications. The software capabilities allow you to:
• Quickly set up an experiment using a template or the Import Plate Setup function
• View raw fluorescence data without mathematical correction or calibration factors
• Quantitate the initial template quantity of a DNA target based on a standard curve
• Generate and display normalized relative quantity values on a log(2) fold change chart to assess the effects of an experimental treatment on gene expression levels
• Export any data set directly to Microsoft Excel or to a text file
• View and analyze the data from several experiments together in a single
project using the multiple experiment analysis functions
• Use high resolution melt analysis for SNP genotyping in an Allele Discrimination experiment
15 Agilent Aria Real-Time PCR Program

Getting Started with the Aria Software

Introduction to the Aria software

The software's Home screen provides an introduction to the program and a list of program features.
To open the Home screen: Click the Home icon near the upper right corner of the program window.
Getting Started with the Aria Software 1
Getting Started with the Aria Software
NOTE
NOTE
If you want the program to open to the Home screen, mark the check box near the bottom of the screen labeled Show Home on StartUp.
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1 Getting Started with the Aria Software
Getting Started with the Aria Software
Introduction
To view the Introduction, click Introduction (near the top right corner of the Home screen). The text on this screen provides an overview of the AriaMx/AriaDx Real- Time PCR System.
Features
To view the Features, click Features (near the top right corner of the Home screen). The text on this screen lists the features of the Aria software.
Minimum PC requirements
Table 1 lists the minimum PC requirements needed to run the Aria
software.
Table 1 Minimum requirements for running the Aria software
Operating system Windows 10 – with regional format set to English (United States)
Supported architectures ×64 (64 bit)
Programs* Microsoft .NET Framework 4.0
Microsoft SQL Server 2012 (required for ET software only)
Runtime components of Microsoft Visual C++ 2010 Libraries
Processor 2 GHz Dual Core Processor
Working memory (RAM) 2 GB (more is recommended)
Hard disk space 40 GB
Display resolution 1024 × 768 (1280 × 1024 is recommended)
* Installers for Microsoft .NET Framework 4.0 and Microsoft SQL Server 2012 are provided
on the Aria Software Download page of the Agilent website. If you do not have the needed Microsoft Visual C++ 2010 components, then the Aria installer will automatically install them to your PC when you initiate installation of the Aria software.
17 Agilent Aria Real-Time PCR Program

Overview of the user interface

Home screen

The Home screen provides an introduction to the AriaMx/AriaDx system and a list of program features. See “Introduction to the Aria software” on page 16 for detailed information on the Home screen.

Menu toolbar

At the top of the program window are the File and Instrument menus.
• The File menu contains commands for opening, closing, saving, and printing experiments and projects.
• The Instrument menu contains commands for connecting to, configuring, exporting data from, and testing the AriaMx/AriaDx instrument.
Getting Started with the Aria Software 1
Overview of the user interface

Tabs

The user interface of the Aria software allows you to open up to 5 experiments at a time (when experiment files are < 1.5 MB), or one project at a time. The program displays each open experiment or project on its own tab, enabling you to quickly switch between them. Click the icon to the right of the tabs to open a new tab. New tabs open to the Getting Started screen.

Left and right panels

When you are working in an experiment or project, the left side of the screen displays the Experiment Area panel, and the right side of the screen displays a panel with tools for the currently open screen (e.g., the Report Configuration panel is displayed on the Generate Report screen). You can hide these panels by clicking the arrow icon next to the panel name. Click the arrow icon again to expand the panel.
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1 Getting Started with the Aria Software
Overview of the user interface

Home/Notifications/Help icons

The top right corner of the program window has 3 icons for quickly accessing the Home screen, viewing any notifications from the program, and opening the Aria help system.
- Click this icon to open the Home screen. Click the icon again to close
the Home screen and return to previous screen.
- Click this icon to open a text box displaying any notifications from the program. When you have unread notifications waiting, the icon is dark blue.
- Click this icon to open the program's help system to the topic that
pertains to the currently displayed screen.

Getting Started screen

When you open a new tab in the program (from the File menu or the icon), it opens to the Getting Started screen. From this screen you can create a new experiment (from scratch or from a template), create a new multiple experiment analysis project, or open an existing experiment or project. See “Overview of the Getting Started screen” on page 43 for more information.

Experiment Notes / Project Notes

The Experiment Notes icon or Project Notes icons appears in the lower left corner of the screen whenever an experiment or project is open. Clicking the icon opens the Experiment Notes or Project Notes text box. Use this text box to type your own notes pertaining to the particular experiment or project. Click Save to save your notes for later reference.
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Help access for the Aria software

The Aria software contains a help system that provides instructions on setting up, running, and analyzing experiments and creating multiple experiment projects. You can also view video tutorials on the Agilent website that describe how to perform some of the most common tasks in the program.

Help system

From any screen or dialog box, click the help icon ( ) in the upper right corner of the screen to open the help system. The help system automatically opens to the most relevant topic based on where you are in the program.
You can navigate the help system window from the Contents tab or the Search tab.
• On the Contents tab, use the table of contents on the left side of the
window to browse the chapters and topics within the help system.
• On the Search tab, type a search word into the field and click GO to
find the help topics that contain the word. If you type multiple words into the field, the program will list help topics that contain all of the words. Use quotes to search for a complete phrase (e.g., “comparative quantitation”). You can also use the Boolean operators AND and OR to find topics that contain more than one search word (e.g., comparative AND quantitation), or topics that contain any one of multiple search words (e.g., comparative OR quantitation).
Getting Started with the Aria Software 1
Help access for the Aria software
The help system contains the following chapters:
• Getting Started with the Aria Software- Contains help topics to
familiarize new users with the program and provide instructions for getting started
• How- To Help - Provides step- by- step instructions on how to use the
program
• Reference Help - Contains trademark designations and a glossary of
QPCR terms
• Troubleshooting and Support - Contains troubleshooting suggestions
and a directory for contacting a technical support person in your region
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1 Getting Started with the Aria Software
Help access for the Aria software

Sample experiments

The Aria software comes with several sample experiment files that include post- run data. The sample experiments are saved to the folder C:\Users\Public\Public Documents\Agilent Aria\Sample Experiments during installation of the software. The folder includes a sample experiment for each experiment type and subtype for both the AriaMx (*.amxd) and AriaDx (*.adxd) software modes. You open the sample experiments in the Aria software to help familiarize yourself with the experimental setup and graphical displays available for each experiment type.
21 Agilent Aria Real-Time PCR Program
2 Specifying Hardware and Software Settings
Update instrument optics 23 Change the default crosstalk correction settings 25 Set software preferences 28
Agilent Technologies
2 Specifying Hardware and Software Settings

Update instrument optics

Update instrument optics
Multiple optical modules are available for use with the AriaMx/AriaDx instrument for detection of different dye spectra. In the Supported Optical Configuration dialog box, you can view the optical modules, their currently supported dyes, and the crosstalk correction settings for non- target dyes that could be detected by each module.
Periodically, Agilent may add new supported dyes and optical modules to the AriaMx/AriaDx Real- Time PCR System, and make a new optics configuration file available to you. You can use the Supported Optical Configuration dialog box to load that new file.
To open the Supported Optical Configuration dialog box: At the top of the program window, click Instrument > Optical Configuration.
23 Agilent Aria Real-Time PCR Program
Specifying Hardware and Software Settings 2
Update instrument optics
To update the optical configuration file:
1 Open the Supported Optical Configuration dialog box.
2 Click Import Optical Configuration.
The Open dialog box opens.
3 Browse to the folder of the configuration file that you received from
Agilent. Select the file and click Open. The Supported Optical Configuration dialog box is updated with the new configuration.
Agilent Aria Real-Time PCR Program 24
2 Specifying Hardware and Software Settings

Change the default crosstalk correction settings

Change the default crosstalk correction settings
Multiple optical modules are available for use with the AriaMx/AriaDx instrument for detection of different dye spectra. In the Supported Optical Configuration dialog box, you can view the optical modules and their currently supported dyes, and change the crosstalk correction settings for non- target dyes that could be detected by each module.
To open the Supported Optical Configuration dialog box: At the top of the program window, click Instrument > Optical Configuration.
Crosstalk occurs when emission from one dye is detected by two different optical modules (the target optical module and the spillover optical module). A dye is at risk for crosstalk when its emission spectra overlaps that of another dye that is assigned to a different optical module. The Aria software includes crosstalk correction settings, which can help compensate for crosstalk.
25 Agilent Aria Real-Time PCR Program
Specifying Hardware and Software Settings 2
Change the default crosstalk correction settings
The factory settings for crosstalk correction are the default settings, unless the default settings are changed in the Supported Optical Configuration dialog box. Once changed, the new default crosstalk correction settings are applied to all experiments going forward. Alternatively, you can adjust the crosstalk correction settings for an individual post- run experiment using the tools in the Amplification Plots graph. See “Adjust the crosstalk
correction settings” on page 201 for instructions.
NOTE
The factory settings for crosstalk correction have been optimized to eliminate potential crosstalk for dyes that are part of the default optical configuration. Agilent does not recommend changing the crosstalk correction settings unless you are using a new custom dye and the emission wavelength of that dye could be detected by more than one optical module in the instrument.
To change the default crosstalk correction settings:
1 In the Supported Optical Configuration dialog box, locate the box for
the optical module that is or could be reporting crosstalk fluorescence (i.e., the spillover optical module). The dyes that have the potential to crosstalk with that optical module are listed in that box (e.g., the HEX- JOE dye in the FAM optical module).
2 Change the crosstalk correction setting for the dye by adjusting the
value in the field.
The values in these fields are percentages of the total raw fluorescence. They will be subtracted from the raw fluorescence signal for the optical module when that dye is used as a target.
Crosstalk correction values that differ from the factory settings are noted with an asterisk (*).
Agilent Aria Real-Time PCR Program 26
2 Specifying Hardware and Software Settings
Change the default crosstalk correction settings
3 Click OK to apply your changes and close the dialog box.
To reset the crosstalk correction settings back to the factory settings:
1 In the Supported Optical Configuration dialog box, locate the box for
the optical module that you want to reset.
Crosstalk correction values that differ from the factory settings are noted with an asterisk (*).
2 Within that box, click the reset icon next to Crosstalk Correction.
The crosstalk correction values for all dyes listed in the box are reset to the factory values.
3 Click OK to apply your changes and close the dialog box.
NOTE
The Supported Optical Configuration dialog box does not include crosstalk correction settings between the HEX-JOE and Cy3 optical modules because the degree of crosstalk is too significant to be adequately corrected. Agilent does not recommend using HEX-JOE and Cy3 together in a multiplex reaction.
27 Agilent Aria Real-Time PCR Program

Set software preferences

The Preferences dialog box is used for setting your preference on the default file name configuration and for creating and selecting analysis templates.
To open the Preferences dialog box: At the top of the program window, click File > Preferences.

Set default file name configuration

To configure the default file name for experiments and projects:
1 In the Preferences dialog box, make sure File is selected at the top.
Specifying Hardware and Software Settings 2
Set software preferences
2 Next to New Experiment/Project File Naming, click one of the
following options:
• Default - Select this option to use the program's default file naming system. For experiments, the default file name is “Experiment” followed by the next available number (e.g., “Experiment 3"). For projects, the default file name is “Project” followed by the next available number (e.g., “Project 3").
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2 Specifying Hardware and Software Settings
Set software preferences
• Custom - Select this option to configure your own file naming system by selecting which pieces of information to include in the default file name. Using the check boxes, you can select to include the experiment type, the creation date for the experiment or project (in format MM- DD- YYYY, DD- MM- YYYY, or YYYY- MM- DD), and the time that the experiment or project was created.
3 Click OK to close the dialog box and save your changes.

Create and apply analysis templates

To create an analysis template that sets the default analysis settings for experiments:
1 In the Preferences dialog box, select Defaults at the top.
2 Type a name for the new template into the field below Choose analysis
template (and Select OK to apply).
29 Agilent Aria Real-Time PCR Program
Specifying Hardware and Software Settings 2
Set software preferences
3 Select when to apply the analysis template using the check boxes. You
can mark one check box, both check boxes, or neither check box.
• Mark Creating new experiment if you want to apply the analysis template to all newly created experiments going forward.
• Mark Opening post run experiment if you want to apply the analysis template anytime a post run experiment is opened in the program.
• Clear both check boxes if you do not want the analysis template to be automatically applied to experiments.
4 Click Add.
A message box opens asking you to confirm that you want to create the new template. Click OK to continue.
5 Click OK to close the Preferences dialog box.
The program will apply the template to your experiments according to the check box selections made in step 3.
Newly created analysis templates have only default analysis settings. See
“Configure and apply analysis templates” on page 192 for instructions
on configuring the analysis settings in the analysis template.
To select an existing analysis template to be applied to experiments:
1 In the Preferences dialog box, select Defaults at the top.
2 In the field below Choose analysis template (and Select OK to apply),
click the arrowhead to expand the drop- down list. The list contains all of the existing analysis templates.
3 Select a template from the list.
4 Select when to apply the analysis template using the check boxes. You
can mark one check box, both check boxes, or neither check box.
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