Sep 23, 2014 — What is the purpose of the BMI student? — I’m finishing up the primary research for my PhD, and as I start to go through my list of “fun projects” to try, I am terribly aware of the big picture.  Part of growing up (as a researcher) is not... Read more

Sep 22, 2014 — KEGG Human (hsa) Database for R — This morning I was trying to link some of my genes to pathways, so of course my first stop was KEGG. What in the world is KEGG? Kegg is a database of pathways. The pathway identifiers for human are numbered... Read more

Sep 18, 2014 — Basic awk to tweak data files! — Making an Annotation File for Genes I had the task to make a little annotation file (for use with vcftools) to annotate a big list of SNPs with genes, because I don’t speak “SNP” language. This turned into having fun... Read more

Sep 17, 2014 — Learning about VCF (variant call format) file analysis — If you just want to learn from the scripts I’m working on: SCRIPTS And as a subset of this post, if you want to learn about using awk to work with text files What is variant analysis? We all know... Read more