Offline Serial Number – Out with the Old, in with the New

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Dear FlowJo serial number license user, We want to advise you that due to technical maintenance, the off-line FlowJo serial number that you are using will need to be updated if you want to use the newest release versions (9.7.7 and 10.0.8) which are available for download. Should this affect you, we will be happy… Read more »

Workspace XML

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An entire FlowJo v10   workspace is described by XML. You can view a workspace’s XML to reveal all that is contained within it. That is, gate dimensions, positions of vertices, file and node names, gating trees, statistics, layouts, plates, tables and formulas are all recorded for each FlowJo v10  workspace. FlowJo v10  also provides a… Read more »

Activity Log

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FlowJo v10 maintains an activity log that records every modification to a workspace, template, or ACS file. Need to know exactly how and where a modification was performed or how long a workspace was open? These details are recorded in FlowJo v10’s ActionLog viewer. You can view the activity log’s XML directly by navigating to the Power… Read more »

Using a Proxy

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A proxy server is a server that acts as an intermediary between computers seeking resources from other servers.  Typically these are used to add a layer of security to a network by screening what goes in and out of a network. If your institution uses a proxy server and a FlowJo site license you will… Read more »

Replacing Nodes

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When you drag a node onto another sample, FlowJo checks to see if the name of the destination node already has a gate with the same name of the node that you are dragging. If the name of the destination gate matches the name of the gate you are dragging then the node replacement dialog… Read more »

Image Files in FlowJo

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Working with images? You can open, gate, and add statistics to image files with the latest release of FlowJo v10 (10.0.7 or later).       Image files, like FCS files, can be parsed into component parts for analysis. Similar to events or cells in an FCS file, pixels are characterized by their color and… Read more »

What is a CyTOF

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The CyTOF instrument is a mass spectrometer capable of high throughput sample injection. The CyTOF instrument is similar to a traditional flow cytometer because it can screen numerous parameters on individual cells. However, it does so with the use of metal particle conjugated antibodies instead of the traditional antibody conjugated fluorophores that conventional flow cytometers… Read more »

R-Tools in FlowJo

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 is an open source programming environment used by scientists to create software tools for their research needs.  Many of these tools have been shared and can be incorporated for free into your cytometric data analysis workflow. There are four ways that you can use R with FlowJo, listed here in order of increasing computer skills…. Read more »

Templates and Compensation

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Applying new compensation matrices to data loaded into templates can be a bit confusing. This document will help! When a template is created on compensated parameters, and new data is loaded that was compensated on the machine (includes an acquisition matrix), these data will load right into the template and gates will be applied. However,… Read more »

FlowJo and CyTOF files

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The CyTOF is a Time of Flight based mass spectrometer that produces FCS files as an output.  The data can thus be analyzed in FlowJo.   What is a CyTOF? The CyTOF is a mass cytometer produced by DVS Sciences.  The name is an abbreviation for ‘cytometry Time Of Flight’, and the machine is used… Read more »