The rglab is currently looking for a scientific programmer and a postdoctoral fellow. We seek people with strong computational skills and interests in immunology and/or vaccine development. Please visit the Jobs page for more info. Note that the Fred Hutchinson Cancer Research Center is constantly ranked as one of the best places to work in academia.
The rglab at the FHCRC
The rglab has just moved to the Fred Hutchinson Cancer Research Center (FHCRC). We are now part of the Vaccine and Infectious Disease Division at the FHCRC. We are located in the Arnold building shown on the left. We will be working on computational problems related to immunology and vaccine development. If you need to contact [...]
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 [...]
chip-chip and chip-seq course at CSHL
I recently gave two lectures on chip-chip and chip-seq at the Cold Spring Harbor Labs as part of the “Integrative Statistical Analysis of Genome Scale Data” course. During my lectures and labs I have covered various aspects of the analysis of chip data going from raw data to enriched regions and de novo motifs. In [...]
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!
Paper selected as JCGS highlight of 2010
The paper “Combining Mixture Components for Clustering“, by Jean-Patrick Baudry, Adrian Raftery, Gilles Celeux, Raphael Gottardo and Kenneth Lo, was selected as a Highlight of 2010 in the Journal of Computational and Graphical Statistics. We have used this methodology for clustering flow cytometry data, as implemented in flowMerge.
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 [...]
flowTrans available from Bioconductor
Greg Finak has just released a Bioconductor/R package for estimating and fitting various transformation to flow cytometry data. The package, flowTrans, has been designed to play well with flowCore and flowClust. This is just a start and we hope to improve the package in the near future, but we wanted to release it ASAP so [...]
