Class Four - Wednesday, November 7, 2007

Lecture

* Discuss Chapter 5: Searching for motifs, more file I/O, more string manipulation, regular expressions, counting nucleotides, and array manipulation
* Exercises at end of Chapter 5

Homework

* For the week of November 12: Read chapter 6 & 8; note, unless there is strong demand for it, we will skip chapter 7
* Try to do as many of the exercises at the end of Chapter 5 as you can; not to be turned in, just to discuss in class; students may be asked for their ideas on each exercise.

Class Three - Monday, November 5, 2007

Lecture


* Online Perl reference
* Exercises at end of Chapter 4
* Discuss Chapter 5: Searching for motifs, more file I/O, more string manipulation, regular expressions, counting nucleotides, and array manipulation
* Exercises at end of Chapter 5

Class Two - Wednesday, October 31, 2007

Lecture

Status report on installing perl on student laptops
Perl documentation:
Reading from files
Arrays
Printing arrays
Scalar and List context
Exercises at end of Chapter 4

Homework

Read Chapters 1-6 in the textbook
Try to do as many of the exercises at the end of Chapter 4 as you can; not to be turned in, just to discuss in class; students may be asked for their ideas on each exercise.

Class One - Monday, October 29, 2007

Lecture

Introductions
Overview
Getting Started with Perl/BioPerl

Homework

Find, install, run a perl program on a computer of your choice
Download and unzip this file ==> begperlbio_all
Read Chapter 1 - 4