How do I set up a reference panel in the TaqMan Genotyper Software?
A reference panel is helpful in large studies to mark your reference samples. Please follow the directions here on how to set up a reference panel.
How do I enter the polymorphism sequence information (i.e., A, C, G, T) for my assays, and where is this info displayed in the TaqMan Genotyper Software?
The polymorphism sequence info can be entered into the software through Setup >Assays. You can import an assay information file (AIF) that contains this info for your assays (AIFs are shipped with assay orders), or manually enter this info for each assay using the edit assay feature. The polymorphism sequence info will be displayed in the assays table under allele1 base and allele2 base, in the results table in the calls column, in the cluster plot display in the x-axis and y-axis titles, and in the export files as genotypes. If no sequence information is entered for an assay, the default display for genotype calls will use the dye names, such as VIC/VIC, VIC/FAM or FAM/FAM dyes.
What is the bookmarking feature in the TaqMan Genotyper Software, and how would I use it?
Bookmarking is a unique feature in TaqMan Genotyper Software that allows you to tag a data point or well while reviewing results in a Study. For example, in reviewing a cluster plot for an assay, a data point is observed to be somewhat between clusters. You can set a bookmark for this data point to denote this well for further investigation. The bookmark persists between the Results workspace and Quality Control workspace, so you can easily identify the data point in a cluster plot, experiment plate view, or on the samples tab. Bookmarks are cleared upon exit from a Study or exit from the application.
I am getting the message: "An error has occurred. See the log file C:\ProgramFiles\Applied Biosystems\TaqMan Genotyper\config\eclipse\1363113099385.log." How can I fix this?
1.Go to the Start button, then Programs, then TaqMan Genotyper Software
2.Right-click on the program and choose Run as Administrator
3.If that does not work, go back to the same menu and choose Properties
4.Choose the Compatibility tab, and check Run this program as administrator
5.Click Apply
6.You may+C69 have to restart the computer for the settings to apply
Can I delete an assay or sample from my qPCR study?
An assay or sample may be deleted from a study only if there is no data or wells associated with it. Upon import of an experiment, the software collects all the assays and samples from the plate and lists them in the Setup > Assays or Setup > Samples workspaces. The assays and samples are stored in these workspaces as a library, and remain there even if you delete the experiment from the Study. Deleting the experiment will remove any data (wells) associated with the assays or samples, but not the assays or samples from the library. The assays and samples must then be deleted from these workspaces to remove them from the Study.