Archive for January, 2010

IoP Collaboration graph with R igraph

Wednesday, January 20th, 2010

My boss asked me to make a nice slide for a presentation showing the collaborations between researchers at our institute. I have a mountain of other work to do, so in the name of procrastination I spent the afternoon playing with the igraph R library:

click for big image

Code

Proudly maintained…

Monday, January 18th, 2010

Heh…

ChIPpeaksAnno

Thursday, January 14th, 2010

ChIPpeaksAnnot is a Bioconductor package, built on top of all the Biostrings, BSGenome, IRanges stuff, that will let you annotate peaks with nearby features. Some features (eg. mouse and human TSS positions for current genomes) are made available as data with the package, but it also speaks biomaRt to fetch other features if you need [...]