Flow Cytometry Data Analysis - How Does It Work?

So, you’ve got your samples, and you’ve prepared them and put them through your flow cytometer. Now you need flow cytometry data analysis to make any sense of your results.

Flow cytometry bioinformatics is the control of flow cytometry data and any activity using the data, including analysis.

Flow cytometry became an essential technique to visualize various types of blood cells. Once you have a flow cytometry data set, whatever you are analysing your samples for, you will need to use data analysis software to give you any meaningful results. But, which software is most suitable for your analysis and what features should you look for?

Flow Cytometry Data Analysis Software

Flow cytometry analysis software provides a solution for this by offering a range of features to allow you to interpret your data in a variety of ways.

This software makes data analysis quicker and easier than ever before, and there are increasingly higher numbers of features available.

For example, since the growth in high-dimensional throughput of flow cytometry data, there has been a greater focus on statistical methods, making it easier to interpret massive amounts of information.

What Should I Look For In Flow Cytometry Data Analysis Software?

"Easy to use" is something we all appreciate it in flow cytometry data analysis software, but what does this mean? What are the features that make flow cytometry data analysis software easy to use? And what are the features we should look for?

Import features

One of the main features of the software you choose is that it imports the types of files you will be producing and will want to add to your analysis. It can also be useful to customise your import, so the data comes in the way you want it.

Plot choices

Flow cytometry data analysis software will give you different ways to view your data. Bi-variate plots are the most common and are provided by most software packages.

If you are interpreting a lot of multi-dimensional data, then multi-variate plots will be essential for you.

Statistic offering

Statistical analysis options will also be of great help if you analyse a lot of high-dimensional throughput data. Features to look out for include clustering, dimension reduction, differential statistics and meta-annotation.

Integration options

The integration of single-cell RNAseq is something some software providers offer, allowing you to compare single cells to each other, find commonalities, and characterise cell types.


Different plugins will help you analyse the data you want to in the way you want it. Not all software providers offer plugins, and there are a few different options, e.g. R and Python.

Reporting features

If you would like to customise the way your reports are produced, you will need to look into reporting options. Do you have specific plots you wish to display without others crowding the more critical data? Do you want to export them to a PDF so you can easily email them or access them offline? These are the questions you need to consider.

The opportunity for collaboration

Some flow cytometry data analysis software providers offer a space for online collaboration, whether within a team or with an online community.

Tercen - The Flow Cytometry Data Analysis Solution

Tercen provides software specifically designed to be powerful enough for high-dimensional analysis. We offer the ability to import both fcs and csv files and customise those imports. The plot features offered are bi-variate, multi-variate, and heatmaps, enabling you to interpret your data in many different ways in one workspace.

In terms of statistics, we offer all of the features above to enable your high-dimensional analysis to be as effective and informative as it can be, without having a complicated coding knowledge. We provide single-cell RNAseq integration, as well as any other molecular readouts. We want to enable your discoveries, and with Tercen, you can create custom reports online and export them to PDFs, so you can show off the data you want, the way you need to.

We also pride ourselves on our emphasis on collaboration. With our flow cytometry analysis software, you will immediately gain access to the wider scientific community right at your fingertips. Collaborate with people online, locally, and across the world.

Try Tercen today, and discover for yourself.

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