The Daily Dongle

Transformation Differences

One of the most frequently questions I'm asked is, "Why does the data look different in FlowJo as compared to DIVA?" It is a result of the biexponential transformation. DIVA calculates the "best" transform and typically uses a width basis around -100 by default. Therefore, the first two decades are... Read more →

comp-matrix confetti? badges to the rescue

You might have noticed that starting with version 7.6 there are new ornaments in the workspace window, to the left of the sample names. We call them "badges" : each of the three has a different context, for now, I'd like to focus on the right-most - which represents compensation.... Read more →

DiVa training materials

Mr Blais forwarded me a link to some BD DIVA training materials: http://bdbiosciences.com/immunocytometry_systems/support/training/online/ Read more →

How to completely disable biexponential scaling in FlowJo

Many FlowJo users want to disable bi-exponential transforms. This post will show you how, for Version 7 (Windows) and Version 8 (Macintosh). Also, before you give up on Biexponential transforms, please be sure to understand what you are giving up. There is a great paper by the Herzenberg lab showing... Read more →

BD FACSDiva sofware 5.0.1 on Macintosh via parallels

Is it true? Is it necessary? is it pretty? well.. the answer is "yes" to at least one of those questions: It's true. You can run DiVa on a mac. First, we need to get windows XP on a mac. I use parallels with the following settings: Of course I... Read more →

DiVa scatter parameter scaling in FlowJo

FlowJo has a set of preferences for dealing with DiVa parameter scaling, digital transformation and number of decades. Most frequently asked question is, how do I set the scale of all my diva side scatter parameters to Logarithmic? To master the scaling of your parameters, launch preferences and edit your... Read more →

more on data visualization

it appears the paper I suggested here is pretty popular with our users. Here is an example email I got (digested, rephrased) which should clarify a lot of points about data visualization in FlowJo. I have already collected numerous data sets with compensation (DiVa based BD cytometer) and am now... Read more →

DiVa log-shmog...

I get a lot of emails like I acquired my data in log, but your software is showing it in linear... This is usually wrt DiVa files. DiVa files are in FCS3.0 format (see this and that )and all parameters are linear. FlowJo has preferences which will try to scale... Read more →