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 »

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 »

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 brightness attributes. In this… Read more »

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 at no cost into your cytometric data analysis workflow. There are three ways that you can use R with FlowJo, listed here in order of increasing computer… Read more »

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 »

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 to… Read more »

For a digest of these release notes, please see this page.  This page contains an exhaustive list of issues that have been reported and fixed, new features implemented, and known issues. Fixed:   FlowJo 10.0.7r2: Significant Improvements: Compensation is now “remembered” in templates Compensation population size restriction has been reduced to a warning if under… Read more »

A standalone tool for de-identifying FCS files. The Data De-identification Utility scrubs FCS data’s keyword values. It supports batching a large selection of FCS files and features an easy interface for selecting which keyword values to scrub. NOTE: The de-identification utility is not a commercially sold product and is thus not attributed to a registered… Read more »

Univariate modeling can be used to create a fit to cell cycle data based on statistics in one dimension, traditionally DNA content. FlowJo provides a simple interface to performing fairly sophisticated DNA/Cell Cycle analysis.  To launch the univariate cell cycle model click on the population of interest in the workspace, then select the Cell Cycle task from… Read more »

The SP6800 Spectral Analyzer uses software, developed by Sony, which performs spectral unmixing and exports FCS files for analysis in FlowJo. Spectral analyzers collect all emitted florescence simultaneously, then use spectral unmixing to separate the individual colors.  Spectral unmixing is the process in which a set of controls that represent each fluorescent color individually, similar to… Read more »