Blog Archives
Thermo Freestyle – Data Dependant Navigation Tutorial
In the pending TraceFinder 3.2 release, FreeStyle will be an optional feature that comes with every installation.
FreeStyle is a new qualitative viewing package that is taking on the features of QualBrowser.
TraceFinder 3.2 gives you the ability to utilize both QualBrowser and Freestyle when analyzing data, from links within the application.
Please view the video below as a quick tutorial on the data dependant navigation of FreeStyle.
Video player has changed. If the picture appears blurry, in the top right hand corner of the player you can enable HD to play back high resolution video.
Thermo FreeStyle – Sequence Navigation tutorial
In the pending TraceFinder 3.2 release, FreeStyle will be an optional feature that comes with every installation.
FreeStyle is a new qualitative viewing package that is taking on the features of QualBrowser.
TraceFinder 3.2 gives you the ability to utilize both QualBrowser and Freestyle when analyzing data, from links within the application.
Please view the video below as a quick tutorial on the sequence navigation of FreeStyle.
Video player has changed. If the picture appears blurry, in the top right hand corner of the player you can enable HD to play back high resolution video.
New TF 3.0 Targeted Screening Workflow in Data Review (or the marriage of TF and ExactFinder)
A new feature to TraceFinder 3.0 is targeted screening. The workflow and method setup that were included in ExactFinder has been included in TraceFinder 3.0. Though it has been expanded to support Nominal Mass as well as HRAM.
That means this feature will work for all mass spectrometers from the GC single quads to the Q-Exactive.
Though some sections are more geared for HRAM, they can just not be used when using nominal mass data.
The other aspect is that TF gives you the ability to acquire, process and report on the fly during acquisition. Therefore, if you so choose you don’t have to wait to review your data. So this expands the capabilities that was introduced in ExactFinder.
This is our first step with this functionality and more is to come in following releases, but there are some interesting things that can be done by having these two workflows combined.
Again the video is a little longer that my 2 minute rule but there is a lot to look forward to.
If the video is blurry please click the cog wheel at the bottom of the panel and increase the video display resolution.
Sneak Peek – Targeted Screening
As Always the TF team is looking forward and addressing market driven issues.
One thing that has become highly vocal in the applied markets is the ability to screen for target molecules, and then quantitatate on the positive hits.
So in a forth coming release, TF has incorporated the ExactFinder Screening workflow into its core set of capabilities.
We’ve expanded on this, to include nominal mass instruments, as well as, the high resolution accurate mass systems. This will allow for us to screen utilize screening from the single quandrupoles all the way to up to the QExactive.
So below is a shot of the new screening data review, and you can get an idea of the new UI style adopted by Thermo Scientific.
We still will have the same quan workflow, but have added acquistion and realtime reporting to ExactFinder screening workflow.
Excel rules the world or at least it thinks it does…..
So, this week we’ve gotten a few questions on importing a sample list in CSV format.
There is an error that can occur if the csv file you exported and made adjustments to, is still open in Excel when you try to reimport it.
Unfortunately, the error message isn’t as descriptive as maybe it should have been, but it did give us a chance to post another answer to a “Ask A Guru” question
If the video is blurry please click the cog wheel at the bottom of the panel and increase the video display resolution.
Now that I have a CDS, what do I do with it?
Well, the end game of the CDS is to supply information that can be used to create methods and acquire data.
Here we’ll look at the Acquisition List side of the equation.
Here in the data we retrieved from a CDS or PMD file is stored.
Note that PMD files do not contain all instrument information but this can be added to a CDS and then adjusted.
From here you can select the export SRM data in the Method View tab and an Xml file containing the instrument specific data will be produced.
If you open this file in a text editor such as note pad it will contain the information in the Acquisition List in a format that can be imported into the Instrument Method editor.
If on the Batch View section or the final page of the Acquisition Mode wizard you select Auto-TSRM update this information is passed to the mass spec at the time of acquisition. This allows the user to collect only the data needed to be processed and allows for manual updates in the batch to be automatically loaded to the mass spec at run time. This does not monitor the RT of peaks and automatically update the mass spec controller, but allows for user input to occur in on place versus having to open the instrument editor for a second adjustment.
Sample List???…. Do I need a Sample List??? Yes and here’s how to import one
So the basic element of data navigation and collection is a list of samples.
This list will identify the properties of the data collected and tell the system, what to do to and the names of the files collected or to be collected.
So TF has a couple of different ways to do this.
The first and easiest is to make a template of the defined sample grid you want to use. In TraceFinder, the user can define the columns that are displayed in both the data results and sample definition grids.
In Batch View or in the sample page of the Acquisition Mode/Wizard, right click the mouse in the grid and a menu dialog that opens up.
In that dialog , select “Export to CSV”. This will make a copy of the grid and the header lables is a file that can be opened by any editing grid application. The most common is Excel, but you could open in a text editor also.
Simply, open the file and for daily use just input sample information in the template and save as a daily/batch .csv file.
A LIMS system, can create a .csv file in this same format or even use a bar code reader to fill in certain fields even in Excel.
Once the sample input is done save the file as .csv and close the editor.
If the file is still open in Excel, MS Office will not let it be used by another program so TF can’t import it until it’s closed.
Right click in the grid and select “Import Samples”.
The Dialog below opens, then select the appropriate file.
The information contained in the CSV file will be inserted into the grid either at the end of the current data or where the index indicator is if that is the option selected in the drop down list below the browse section.
There is also a xml format that can be created fromat LIMS system that can be used, or if Xcalibur has previously been in use the .sld files can be utilized also. Any sample type that TF does not recognize will be set to the Unknown Sample type.
TraceFinder: Direct Knowledge 