If the gate extends outside the plot area, does it extend to infinity?
No. The gate does extend into the space outside the plot area, but not to infinity.
An example of extending the gate outside the plot area
In the example below, plot is formatted such that the Resolution Minimum is 0 on the X and Y axis.

Suppose we extend the bottom and right borders of the gate so that they are outside the plot area.

In this case, three corners of the gate have coordinates outside the plot area. However, the gate borders are not necessarily including the data points with the lowest APC-Cy7 and PE-Cy7 intensities.
This can be demonstrated by setting the Resolution Minimum of the plot axes to a lower value (-10,000). In the image below, you can see that there are still some events on the plot that are located to the left of the gate and below the gate.

For comparison, the initial gate position is shown below, but with the Resolution minimum set to -10,000 on the axes.

If you want to ensure the entire population of interest is included in a particular gate:
- Open the plot's format menu
- Navigate to the Axes category of the Format menu
- Select the X or Y axis button
- Uncheck Automatic Minimum and/or Automatic Maximum, and specify a custom Minimum or Maximum for the axis.
- Pick a value such that all events in the population of interest appear within the plot area.
- Do the same for the other axis, if desired.

- Once all events are visible on the plot, resize the gate to include the entire population of interest.

- Optional: On this plot, display other data files in the dataset to ensure the gate is in the desired position for all affected data files.
- Adjust the Axis minimum and maximum back to how they were earlier, or how they are preferred for presentation.

- Right-click on the plot and select Duplicate

- Open the format menu for the new plot. Navigate to the Axes category of the format menu
- Click the X or Y axis button
- Under the Min/Max Resolution section set a custom Minimum and/or Maximum value for the axis. Pick a value such that all events in the population of interest appear within the plot area.

- Do the same for the other axis, if desired.
- Resize the gate to include all events in the population of interest.

- Optional: On this plot, display other data files in the dataset to ensure the gate is in the desired position for all affected data files.
- Once the gate position has been finalized, delete the plot copy- it is no longer needed.
The borders of quadrants extend to infinity. If you wish to create a gate with borders that extend to infinity, you may add a set of quadrants to the plot and create a linked gate. This creates a gate which shares the same borders as a single quadrant.
- Click Gating tab > Quadrants
- Click on the plot of interest to add a set of Quadrants
- Click OK to use the default naming scheme, or enter custom names.
- Click the centerpoint of the quadrants, click the Format tab > Selected Gate or Quads
- Under the Angles section of the format menu, Checkmark the checkbox called Floating if you want the borders of the gate to be angled.

- Create a linked gate for one of the quadrants by clicking Create under the section called Linked Quad Gates
- Enter a name for the new gate
- Select which of the 4 quadrants to link to the gate
- Select a Parent gate for the new gate
- Click OK

- The dimensions of the new gate are controlled by the Quadrant position. It is recommended to keep a copy of this plot (showing the quadrants) in the gray space of the layout so you can make adjustments as needed.
- You may hide the quadrants from a plot by clicking on the centerpoint, pressing the Delete button on your keyboard, and clicking Hide
- To show the gate on a plot:
- Right-click on the plot, choose Gates > Show gates
- Checkmark the gate that is linked to the quadrant, and click OK

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Installation
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Licenses
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- Can I get more information regarding the Add-Ons that can be purchased with a license?
- Can I lock my template based on an electronic signature?
- Does FCS Express have any features to help meet 21 CFR Part 11 compliance?
- Does FCS Express have Quality Control features?
- Does FCS Express offer Single Sign On capability?
- How do I configure SQL Server to host a database for FCS Express?
- What database options are available when I purchase the Security option?
- What is the difference between the different types of Users that are available with a Security and Logging license?
- What is the difference between the Logging option and System Level Audit Trails?
- What SQL Server permissions are needed?
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- Can I share my USB dongle or countercode license with another user?
- Can I track usage of the internet dongle?
- Can I try out the Internet Dongle before I make a purchase?
- Can the administrator log users out?
- Do you have to be connected to the internet at all times with the Internet dongle?
- How can users be added to an internet dongle license?
- How do I activate my dongle?
- How do I change my internet dongle/site license password?
- How many people can be logged in at the same time?
- How many user accounts can I create?
- If a user left the computer running can the user log themselves out from another computer?
- What are the differences between the internet dongle and network licensing options?
- What happens if I lose my internet connection?
- What happens if the user leaves the computer without logging out?
- What happens to the users login in case of an unexpected interruption? For instance, a software crash, power failure, etc.
- Why am I receiving a message that FCS Express cannot connect to De Novo Software servers?
- Show all articles ( 1 ) Collapse Articles
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- Can I convert my Cytek license from the countercode licensing option to another licensing option?
- How can I claim my license purchased through BD Accuri Cytometers?
- How can I claim my license purchased through BD Biosciences?
- How can I claim my license purchased through Nexcelom Biosciences?
- How can I claim my license purchased through Sysmex-Partec GmbH?
- How can I claim the FCS Express license that came with my Cytek instrument purchase?
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Layouts & Loading Data
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- Can I customize my Quick Access Toolbar?
- For an existing layout, can I change the way FCS Express remembers parameters?
- How can I exclude histogram overlays from batch processing?
- How do I change my layout from portrait to landscape?
- How do I change the resolution of my exported images?
- How do I re-establish data files that were linked to a layout?
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- Are Beckman Coulter LMD files unique?
- Can I find a support resource page for the analysis of Cytek data in FCS Express?
- How can I easily create the "filename" column in the "ExtraKeywords Table.csv" file?
- How can I load a Sony MA900 Index Sort file into FCS Express?
- How can I load data from the BD Accuri C6 Flow Cytometer?
- How can I load MACSQuantify files that were exported from MACSQuantify software version 3.0.1?
- How can I quickly reload all of the data files in the data list?
- How do I change the display in my plots from one data file to another data file?
- How do I export .ICE files from Thermo Cellomics HCS Studio?
- How do I tell FCS Express what plate size to use if that information is not included in the data file?
- How do I upload files to the De Novo Software FTP site?
- How do I use BD Accuri CFlow files with Multicycle DNA analysis in FCS Express?
- How do I work with images from the Thermo Scientific Attune CytPix?
- What is the Elapsed Time setting in the Gallios software and how do I convert it to real time?
- Why am I seeing a warning message when loading my Cytek data onto a layout object?
- Why are iterations in my Data List gray?
- Why are there sometimes access violations when I save and load files?
- Why do I get the message that a data file exported from a FACSDiva™ Experiment is invalid?
- Show all articles ( 3 ) Collapse Articles
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- How are existing quadrants handled when an old layout is opened in version 7.20 and later?
- How can I set quadrants to behave like conventional gates?
- How can I set quadrants to behave like in earlier versions?
- How can quadrants be linked?
- Quadrants in FCS Express versions 7.20 / 7.24 and later
- Why does the Quadrants Options window appear when I open an older layout in version 7.24 or later?
- Why have percentages reported by quadrants changed after updating to FCS Express version 7.20 or later?
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Data Analysis
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- Caveats when using Biexponential Scaling with automatic Below Zero parameter detection in the presence of outliers.
- How can I create a merged data with equally-sized downsampled samples?
- How can I do pre-processing for high-dimensional data analysis?
- How can I explore tSNE/UMAP plots?
- How do I use SPADE?
- What is FlowSOM?
- What is T-SNE?
- What is UMAP?
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- Can FCS Express integrate Python scripts?
- Can I use the FlowAI script in FCS Express?
- Can I use the FlowClean R Script with FCS Express?
- How can I create a matrix of autofluorescence, and import autofluorescence into EasyPanel?
- How can I recreate ratiometric data acquired in FACSDiva?
- How do I use R Integration with FCS Express?
- How does FCS Express implement software compensation?
- If my data does not have a Time parameter, can I create one?
- What is compensation?
- What is the compensation workflow in FCS Express?
- When acquiring spectral data, should my single-stained controls be "as bright or brighter" than my fully-stained sample?
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- Can a set of quadrants be both percentile and floating?
- Can I customize the display of my data from different instruments?
- Can I disable the live updating feature?
- How can I display all of my detectors for my Cytek data?
- How can I set FCS Express so my FCS 3.0 biexponential data looks the same as it did in the BD FACSDiva software?
- How do I display Summit data in FCS Express as it appears in the Summit Software?
- How do I fix the biexponential axes on a plot?
- How do I rescale CytoFLEX and DxFLEX data so it displays as it did at acquisition?
- How do I update my density and contour plots created in Version 4 to use the newest color palette?
- What are resolution options?
- What is Biexponential and Hyperlog Scaling?
- What is the best way to set FCS Express to display FCS 3.0 data from FACSDiva on a 4 decade log scale?
- Where can I get more information regarding DNA analysis using the Multicycle AV?
- Why can’t I change my plot axis labels from the Name keyword to the Stain keyword?
- Why do I see a warning message when inserting a Spectrum Plot?
- Why do my dot plots appear sparse and blocky?
- Why is the text on the right most label cut off my plot?
- Show all articles ( 2 ) Collapse Articles
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- Can I create an output file that contains the same plot from each data file on a single page?
- Can I export spectral data to the FCS format?
- How can I successfully export a GatingML file?
- How do the batch processing run modes differ, and why would I use them?
- Why do I get an “Old format or invalid type library” error when using Microsoft excel during batch analysis?
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- How are statistics in FCS Express calculated compared to how they are calculated in BD FACSDiva?
- How can I display my statistical data in Scientific Notation?
- How do I calculate EC/IC Anything?
- What is “Stain Index” and how do I calculate it with FCS Express?
- What is MFI (Mean or Median Fluorescence Intensity) and how do I calculate it in FCS Express?
- Why have percentages reported by quadrants changed after updating to FCS Express version 7.20 or later?
- Why is the Geometric Mean being reported as NaN or ##ERROR##?
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Image Cytometry
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- How do I adjust the axes to display small particle data from Amnis CellStream?
- How do I choose which images and parameters to view in a Data Grid?
- How do I export/save data from IDEAS software and load it in FCS Express?
- How do I make my images in the data grid larger?
- How do I pseudo-color images in a data grid?
- How do I work with Amnis derived image cytometry data in FCS Express?
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- Can I display heat maps with my Image Cytometry data?
- Can I work with data from PerkinElmer Instruments?
- Do you offer 21 CFR Part 11 compliance options for the Image Cytometry Version?
- Do you offer image segmentation or image analysis?
- How can Attune™ CytPix data sets with images (.ACS files) be merged for high dimensional analysis?
- How do I use CellProfiler Data with FCS Express?
- How do I use ImageJ with FCS Express?
- What file formats are compatible with FCS Express Image Cytometry?
- Where can I find Nexcelom Resources and Applications?
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FCS Express on Mac
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Upgrading FCS Express
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- Can different versions of FCS Express exist on the same computer?
- How can I view and convert my V3 layouts to FCS Express 7?
- How do I import my version 3 security databases into newer versions of FCS Express?
- How do I update Density Plots created in Version 4?
- Is there an upgrade discount from earlier versions of FCS Express?
- Version 4 Internet Dongle Retirement
- Why are my density plots from V3 not displayed correctly in later versions?
- Why are there fewer outlier dots on my FCS Express 5 and later density plots than in V4?
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Clinical & Validation Ready
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- Can I get more information regarding the Add-Ons that can be purchased with a license?
- Can I lock my template based on an electronic signature?
- Does FCS Express have any features to help meet 21 CFR Part 11 compliance?
- What is the difference between the different types of Users that are available with a Security and Logging license?
- What is the difference between the Logging option and System Level Audit Trails?
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