Category Archives: Videos

TF3.0 – Using Estimated/Semi-Quan Amounts

In certain parts of TraceFinder and LabForms, we had exposed the ability to use estimated amounts of substances that did not have their own calibration curve. This feature goes back to the days of the Incos data systems, circa 1980.

In TF 3.0 we have exposed this capability, to be a bit more friendly to use and to be interactive in the user interface, versus just report generated.

In the following video, you will see where to set a compound to use the estimated feature and how it is displayed throughout the applications with visual clues to help you determine that the results you are observing is a semi-quantitative amount.

If the video is blurry please click the cog wheel at the bottom of the panel and increase the video display resolution.

TF 3.0 Converting Data from older versions for use in TF 3.0

In TF 3.0 there were alot of enhancements to how we handles the data. So we made sure that you can can seamlessly review your data created in previous versions.

Also all your templates and methods can be converted.

The Legacy Data Converter allows for browsing to all stored data locations and can replicate the original folder structure to fit within the TF 3.0 framework. Once converted you will be able to browse, review and report any of your old data in TF 3.0, but the original results and files remain in their locations so that the batches, method and templates are never destroyed.

If the video is blurry please click the cog wheel at the bottom of the panel and increase the video display resolution.

TF 3.0 uhhhh… Where did Configuration go?

TraceFinder has a few options that can be configured for use in the applications. These includes Power Modules which add significant functionality to default settings that a user has determined work best for them. Such as the use of PPM versus MMU for extracted mass range determination behind the scenes.


In previous versions the configuration mode was accessible in the main navigation panel, typically displayed on the left hand side of the screen.


It is now an always present COG wheel, in the upper right hand corner of the application screen.


So watch the video below to see how to access Configuration and what each section and specifically what some of the options do in and for the applications.


If the video is blurry please click the cog wheel at the bottom of the panel and increase the video display resolution.


New Look and Feel for the Compound Database in TF 3.0

When TraceFinder originally launched we introduced the concept of using a compound data base for storing compound information for use later in method development.

Over the last couple of years we’ve found that more information was needed for use in some complex experiments that were becoming more common.

So we had several discussions with customers, on how to make this an easier process to get data in and alter it once it was in.

In TraceFinder 3.0 you will find a completely new user interface for the CDB. It allows for a detailed view and editing of data needed for Quantitative and Targeted Screening experiments. More ease of use features are yet to come but if you were a user in the past, you should find this interface quite a bit simpler to use.

We have also incorporated the ability to export all the data to Excel for grid type editing and then reimport the changes.

If you have compound data stores from legacy versions of TraceFinder or compound data bases from ExactFinder, simply choose the file and import it. TraceFinder converts and validates the data into the TF 3.0 format.

You can get an overview of the CDB in the video below.

If the video is blurry please click the cog wheel at the bottom of the panel and increase the video display resolution.

Intelligent Sequencing – Step One – Setting up the method

Intelligent Sequencing is not a new concept. In the late 90’s Thermo had an application called ToxLab which used the concept of flagging data and altering the sequence of the set of samples based on failure criteria.

This allows for insertion of blanks, reinjection of sample or a combination according to criteria that a chemist would normal use to look at his data the next day to determine, which if any samples had to be rerun.

Intel Seq just does this on the fly.

It allows the user to have confidence that the data will be handled in the prescribed manner using the existing on the fly criteria that has existed in TraceFinder for a number of years.

By using this feature the chemist can cut back time on reinjections and sometimes on sample prep since the sample wouldn’t have evaporated. Also it will not have gone beyond the sample stability time threshold before reinjection occurs.

The first part of the operation is setting flagging criteria as you have done previously.

The next is setting of the method criteria for Intel Sequencing.

If the video is blurry please click the cog wheel at the bottom of the panel and increase the video display resolution.

TF 3.0 has some new homes for some functions previously available

Part of the process of looking at User Interface changes, is being able to make sure that we present a logical way of navigating to things, that we may not use on a regular basis. This makes it easier for the end user to remember where to get to that special function, when they need it.

So in the application we still have many right click options, but we have also moved many of the scattered functions into the menu drop downs.

These changes have come from customer request or questions about where functions are.

So here are the most used functions that are not directly data linked.

If the video is blurry please click the cog wheel at the bottom of the panel and increase the video display resolution.

TF 3.0 Export Results Grid to Excel and Copy Images to Clip Board

Sticking to new features in data review, we’ll continue with a simple workflow.

One of the many request that TraceFinder has received over the last year has been to have the ability to export the results grid directly to Excel instead of having a Custom Report generated.

In TF 3.0 all data grid results whether in the quantitative views or targeted screening section, export all data to Excel or CSV files directly.

No need to produce a custom report and navigate through the files menus to go get it.

Simply export and place the file where you want it.

Also a feature that has been requested is the ability to copy high definition images of chromatograms and such to the clipboard for use in papers, lab notebooks and presentations/posters.

We also did this in TF 3.0

If the video is blurry please click the cog wheel at the bottom of the panel and increase the video display resolution.


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.

New TraceFinder 3.0 Data Review Elements

In TraceFinder 3.0, you will find that we have changed the Graphical User Interface quite a bit. Other than changing some of the colors and the navigation style we have also added elements to help review data in a way that can be tailored.

A concept that came across to our team was to help tell the story of the data. This is what TraceFinder was intended to do from its concept. We realized that many scientist that will use this and related products will not be “CLASSICAL” mass spec people. Young new chemist or other scientist not use to mass spec data moving into the lab need to be able to see what they need to know about the data and have a feel on what works best for them. At the end of the day they are telling the story of the data to their customers.

Our concept is to give you the ability to choose what you want to see and how you want to see it.

In forthcoming releases you will have the ability to “Read the Cliff Notes” of the data or the other end of the spectrum of reading “War and Peace,” if you so choose. We don’t want to limit the data or have the data be so overwhelming it can’t make sense.

So in this video we will show you how to navigate in the Compound and Sample Views which are just different ideas on how to look at the data. Also how to arrange the views so it makes sense, or makes it easier to read through the data.

A big plus is the ability to filter out data you don’t care to see or only data you are interested in.

All this and the views are remembered automatically when a User signs out or closes the application.

Although the video only takes place on one screen. Any part of the data review section is a dockable panel so you can have parts on multiple monitors and they will remain synced. I personally use a three monitor setup and have a multipeak panel on one, a detailed view on another and my data review grid on my main display.

Remember we can only make it better if we hear back from you so, please send in your ideas, comments or questions. The video is a little longer than my 2 minute rule but it should explain a lot of the NEW ELEMENTS and their functions.

If the video is blurry please click the cog wheel at the bottom of the panel and increase the video display resolution.


The Master Method – A trinity of information

We will start a short series on the Master Method. So here we go.

Think of the Master Method as the supply truck that comes everytime you want to run an assay. It contains what you need to get things done. It’s alittle bulky and can be somewhat intimidating the first time you see it. Since it controls alot of the available power TF gives you, it has lots that can be,but doenst have to be configured and used.

For example, if a value is set to zero in the QAQC section it isnt turned on for use by the flagging system.

But lets start off with the basics.

The Master Method is a repository for the three things needed to gather and process a data file.

  1. The instrument method
  2. The peak processing parameters
  3. The selected reports to be produced.

With these three things we can submit a batch of samples and acquire, process and produce reports on the fly, after every sample. (but you need a sample list too)

The instrument method is a copy of a stored instrument method somewhere on your hard disk. It is associated with the processing method and can be changed according your your needs. But you always have the ability to go back to your orginal instrument method and copy over any changes. It’s a safety net.

It also insures that you only have to pick the Master Method when making a batch of samples. This keeps a batch consistant, run after run and technician to technician.

The processing parameters are set up for each peak and compound grouping. Once set up again it keeps things consistant.

Thirdly, is the report section. This seems to be a bit of confusion at times. By selecting which reports and what format you want them produced in, ahead of time. The data is always produced in the same way without missing a page. It’s also nessary for the reporting on the fly feature.

If you want to create reports after each injection, simply check the box on batch submission that says “Create Reports”. Then however you selected the report to be produced and one or multiple formats, it make them once the sample has been acquired and automatically processed. Except for Batch level reports, which are produced at the end of the batch sequence.

Follow the video below to see the process.

The video is from the soon to be release TF 3.0 but the workflow is the same.

If the video is blurry please click the cog wheel at the bottom of the panel and increase the video display resolution.