FC500

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The FC500 produces a LMD file that contains a fcs2.0 portion and a fcs3.0 portion. Simply setting the preferences in v10 to read the fcs2.0 portion will ensure that the data is displayed in FlowJo as it was shown on the FC500.

CyAn ADP

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CyAn ADP – Summit Software v5 Summit produces FCS 3.0 compliant file.  FlowJo’s default preferences should display the data the same way as seen on the instrument. If you have any problems with the appearing differently in FlowJo then it did on the machine, please email techsupport [at] flowjo.com!  It is a very easy fix!… Read more »

MoFlo XDP and Astrios

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MoFlo XDP and MoFlo Astrios – Summit v6+ Summit produces FCS 3.0 compliant files that can be used with FlowJo.  The data will look identical with the default settings, but the scale on the scatter parameters will be reported differently compared to the display on Summit.  Summit appears to display data binned down to 256… Read more »

Gallios

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Gallios currently uses CXP software Beckman-Coulter Gallios produces LMD files that contain an FCS 3.0 compliant portion. They display the data as collected, if “True View” is used.  If standard view is used, linear parameters are scaled 1-1024 and log parameters to four decades with a range of 1-1024.  This is a display similar to… Read more »

10.0.7 Release Notes

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Below is a selection of our full list of new features and fixes in 10.0.7.  For an exhaustive list, please see this page. Fixed: 10.0.7r2: Compensation is now “remembered” in templates Compensation population size restriction has been reduced to a warning if under 5%. Manual gating will override Compensation Matrix calculation and allow matrix to calculate… Read more »

Script Editor

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The Script Editor is a platform that allows the user to program their own routines into FlowJo using JavaScript without having to worry about compiling a program. The script editor allows low-level access to FlowJo, and uses JavaScript to execute some powerful operations.   The editor can be found by default in the Cytometry band… Read more »

Offset Quadrants

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Offset your quads In version 10 of FlowJo, you can manipulate the side arms independently for any one dimension. As you can see in the image below, the arms of the quad in the vertical direction are moved independently. The quad is still left in tact, so it behaves like a quad if moved or… Read more »

Chapter 3 – The Matrix Editor

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CHAPTER 3 – The Matrix Editor The process of creating a compensation matrix and the process of editing a compensation are considered two separate processes in version 10.  The workflow was constructed in this manner to discourage users from editing spillover values while creating the matrix.  With the proper controls, the matrix creation process should be… Read more »

Chapter 2 – Creating a New Compensation Matrix in FlowJo

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CHAPTER 2 – Creating a FlowJo compensation matrix from single stain controls back to Compensation Workflow Overview Before compensating data in FlowJo, be sure your parameters which require compensation are scaled correctly. Compensation has been reworked for version 10.  Compensation controls (single stain samples) must now belong to a compensation group in order to create a compensation… Read more »

Chapter 1 – Editing Acquisition-Defined Compensation Matrices

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CHAPTER 1 – Altering an acquisition matrix back to Compensation Workflow Overview   Acquisition matrices are defined by the $SPILL or $COMP keyword embedded within the fcs files.  They are read and applied by FlowJo to the files automatically when the files are loaded. Please Note: Altering these spillover values is not recommended unless it… Read more »