### MCB112: Biological Data Analysis (Fall 2018)

• Michael: Neatly organizes external input and output files in directories, and shows how to use the Python os (operating system) module to interact with directories and files. Uses a different visualization than Kate to see the strongly differentially expressed subset of genes in the data, the telltale tip that suggests one might want to turn on the optional TMM normalization in edgeR. Shows some extra explanation and visualization of p-values, including the fact that when the null hypothesis is true (like, in comparing wt to wt sets of samples), p-values are uniformly distributed from 0 to 1, and visualizing the effect of TMM normalization on all genes' p-values.