We conduct research in computational biology and statistical genomics with applications to high throughput biological assays and immunology. The rglab is located within the Vaccine and Infection Disease Division at the Fred Hutchinson Cancer Research Center in Seattle.
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Flow cytometry special issue
Our special issue on “Recent Bioinformatics Advances in the Analysis of High Throughput Flow Cytometry Data” has been published in Advances in Bioinformatics. This includes our own work on flowMerge, shown on the left.
Let the Data Flow
Last month’s issue of The Scientist had an interesting article about flow cytometry data analysis, and in particular about software and tools available for data analysis. The good news is that the article mention Bioconductor. The bad news is that it was almost a simple footnote, to quote the article it said: “Don’t forget freeware. [...]
rMAT and openMP
So we have been working on enabling openMP for rMAT. So far we have only been using Grand Central Dispatch for parallel computation as we mainly use Mac OS X 10.6. This has been available in rMAT and rGADEM for quite a bit already, and it works great. This being said, we know that not [...]
Congratulations to Marie-Pier
Congratulations to Marie-Pier who won an award for best poster presentation during the IRCM research day. Please visit this page for more details. Well done Marie-Pier!
GSL and 64 bit windows
Good news for 64-bit Windows users! Thanks to Arnaud Droit (and to Brian Ripley and Uwe Ligges who provided essential information to help solving this issue), a 64-bit version of the GSL (GNU Scientific Library) is now available on our wiki. You will find binaries for 32 and 64 bit windows as well as instruction to build [...]
flowClust free from mclust
I just wanted to post a quick note about flowClust. As of version 2.6, flowClust does not depend on mclust anymore. So for those of you who emailed us because you wanted to use flowClust but you found the mclust license too restrictive, you are now free to use flowClust! Because flowClust is distributed under [...]
rGADEM soon to support Grand Central Dispatch
So I just wanted to post an update regarding our development of rGADEM. As I said in a previous post, we have been working very hard to improve the computing efficiency of our ChIP-seq pipeline. After PICS, that supports parallel computing via snowfall, rGADEM will soon support Grand Central Dispatch (GCD) on Snow Leopard. As [...]
ChIP-Seq pipeline: PICS, rGADEM, MotIV
I thought I would post an update about the status of our ChIP-Seq pipeline, including PICS, rGADEM and MotIV. I know we have promised to release PICS long ago, but we haven’t delivered yet. Well, things have changed today. It is now available on Bioconductor! You can get a copy here. Of course, it is [...]
Ken wins 2009 Marshall Prize
Congratulations to Kenneth Lo who has won the 2009 Marshall Prize at UBC. The prize honours Professor Emeritus Albert Marshall for his scholarly contributions and his role in establishing the Department of Statistics at UBC. It is awarded to a statistics graduate student who has achieved great distinction. Ken thesis is entitled “”Statistical Methods for [...]
