Schedule

Day one, UNIX (9:00 - 17:00 including 2 coffee breaks and a lunch):

- project design and data life cycle management:

   - coherent structure and documentation

- fundamental concepts:

   - modern computing in biology

   - overview of interpreted programming languages

- introduction to the shell, bash

- navigating files and directories

- working with files and directories

- working with large numbers of files (loops)

- pipes and filters

- finding things

Day two, R (9:00 - 17:00 including 2 coffee breaks and a lunch):

- introduction to R and RStudio

- introduction to R syntax, key concepts and objects

- introduction to RStudio environment

- formatting/importing data in R

- worked example with RNA-Seq data:

   - loading a table of normalized counts

   - validating structure, consistency

   - subsetting

   - summary statistics

   - base R plots and ggplots2