At last week's 2013 useR! conference in Albacete, Spain, Martin Morgan and Marc Carlson led a course on using R/Bioconductor for analyzing next-gen sequencing data, covering alignment, RNA-seq, ChIP-seq, and sequence annotation using R. The course materials are online here, including R code for running the examples, the PDF vignette tutorial, and the course material itself as a package.
Course Materials from useR! 2013 R/Bioconductor for Analyzing High-Throughput Genomic Data
Getting Genetics Done by Stephen Turner is licensed under a Creative Commons Attribution-NonCommercial 3.0 Unported License.
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