Welcome to the 2013 TGAC biology workshop¶
- Titus Brown <ctb@msu.edu> and Alexandra Pawlik <a.pawlik@software.ac.uk>
We will use this Etherpad site to distribute commands.
Explain: minute cards; stick notes on monitors.
- Session 1: command line & BLAST
- Session 2: mRNAseq assembly and annotation
- Session 3: Shell and shell scripting
- What is the shell and how do I access the shell?
- Hello, World!
- Moving around the file system
- File Types
- Changing Directories
- Arguments (flags)
- Examining the contents of other directories
- Full vs. Relative Paths
- Saving time with shortcuts, wild cards, and tab completion
- Which program?
- Examining Files
- Redirection
- Creating, moving, copying, and removing
- Count the words
- The awesome power of the Pipe
- A sorting example
- Searching files
- Finding files
- Session 4: data analysis in IPython Notebook