Next generation sequencing; Short read alignment
Slides from the lecture
Suffix tree for PS4
A brief explanation of suffix trees and their use in exact pattern matching
Graph search algorithms for PS3
A simple overview of the depth-first search (DFS) and breadth-first search (BFS) algorithms
Perl tutorial sessions
Location: LSRC Room D344
Session 1: Monday, Sep 6 2010, 8:00-10:00 PM
Slides
Examples
(though these are better accessed by Snarf in Eclipse)
Session 2: Wednesday, Sep 8 2010, 8:00-10:00 PM
Slides
Examples
(though these are better accessed by Snarf in Eclipse)
As mentioned at the tutorial, here are the instructions for installing the PadWalker CPAN module that should allow EPIC to show variable contents in the Eclipse debug perspective: Windows, Mac
Online Perl tutorials
- Beginner's introduction to Perl
- Frequently asked questions in Perl
- Beginning Perl online textbook
- Essential Perl: a 23 page introduction to the main features of Perl from Stanford CS Education Library
More help on specific topics:
- Dereferencing cheat-sheet: A list of examples for referencing and dererencing arrays and hashes
- References: Short tutorial about syntax of references in Perl.
- Regular expressions:
- Debugging:
- Short pieces on common syntax errors, logic errors and using the strict option to prevent undefined variables.
- Using the Perl debugger in EPIC
- A tutorial on using the Perl debugger from command line.
