As a researcher at the National Cancer Institute, part of the National Institutes of Health, I work broadly in the areas of genomics and bioinformatics of high-throughtput data analysis. In addition to data analysis and biologically-driven projects, I have a strong interest in developing software and tools for analysing and interpreting genomic data and help to lead the Bioconductor project. Take a look at my publications page or my Google Scholar Profile for details.
Recent Blog Posts
flexible bioinformatics pipelines with snakemake
Friday, May 10, 2013
Building bioinformatics pipelines can be a somewhat tedious process that seemingly never ends and often results in significant refactoring when assumptions or workflows change. The snakemake project is a small framework that facilitates building flexible, reuseable pipelines.
autoreload in ipython to ease development
Thursday, May 9, 2013
New versions of ipython (after 0.12) ship with a convenient autoreload functionality. This is just a note-to-self about usage.
Testing for Non-Differentially-Expressed Genes
Friday, March 22, 2013
A bioconductor email list exchange discusses the question of tests of equivalence with regard to finding unchanging gene expression.