The Daily Dongle

width basis titration

while the exact mechanism for biexponential transformation remains a mystery (patent, Parks pdf, herzenberg PDF), Jay and I rigged FlowJo 7.5 to spit out a sequence of images, varying the variables of negative decades and width basis over a fixed range. interesting results.. can be used to illustrate the purpose... Read more →

Good thing to do when upgrading FJ from older version (OSX)

1. Search for "flowjo" where type=application, and remove all found versions (I found 18), then empty trash. 2. Download the file http://umpqua.treestar.com/bin/FlowJo.8.dmg (static link, always up to date) 3. Open the volume and drag app to Applications 4. Right-click on old workspace, choose Info: 5. Look for the "open with"... Read more →

does number of vertices in my polygon gates matter?

Admittedly, I don't get asked that question a whole lot, but once I did, it sparked an interest, and I put it on my todo. Today I got a round tuit, and have some benchmarks to show yee. First I whipped out a quick titration spanning gate complexities of {3,20,40,80}... Read more →

4 core mac vs. 8 core Opteron FlowJo Showdown.

Guess who's been coming to work early/leaving late to test some new advances BOTH teams have been making in threading. First, for the PC version. I got an approval for a $1200 make it yourself 8-core opteron 2.1GHz workstation. With help from Ryan Minihan, it was up and running yesterday,... Read more →

more on threading

well, I ran a 5.6GB dataset on 7.5 beta today, and with just simple gates, not very complex analyses, just to test engine robustness. I compared the old threading (socket engine, multiple processes, multiple simultaneous IO's) vs the new one (single engine, single process, linear IO's) and found some interesting... Read more →

CXP data (FC500 etc.)

*** update 9/23 *** I posted FJ 8.8.2 for Macintosh this morning, which - at least on my system - supports these files without the patch below. Some files from Beckman Coulter's CXP software declare that 10 bits are used to store parameter data ($P#B\10\) when 16 bits are are... Read more →

interesting publication stats

ApSci Nicholas Ostrout has done some diggin' on pubmed, to yield the following publication factoids: Immunity: 85 papers in 2007 used Flow Cytometry either for sorting or analysis, and out of those, only 47 explicitly stated their analysis package. Of those 47: 10 - used Cell Quest 3 - FACSDiva... Read more →