ECOL 553L: Computational Lab

Schedule: link

* Days with no lectures notes contain the tentative schedule, this is subject to change.

Homeworks (unless specified) will be due at 11:59pm on Tuesday of each week.
Quizes (unless specified) will be at the start of class on Tuesday of each week.

You can re-take a quiz once within a week of the original quiz by visiting Dan or Sergei's office hours or making an appointment.
Week
Dates		 Handouts/Homework Tuesday Slides Thursday Slides
Week 1
21,23 Aug.		 Resource List
Exersise Solution
Acivity Solution 		Slides
Week 2
28,30 Aug.		 VIM Quick Reference
UNIX crib sheet
UNIX Esentials 		Unix Intro
Slides
Week 3
4,6 Sept.		 Handout & Homework Unix Intro
Slides		 Unix Intro
Slides
Week 4
11,13 Sept.		 Handout & Homework (Updated 13 Sept) BLAST
Slides (Updated 13 Sept)		 Perl Intro
Slides (Updated 13 Sept)
Week 5
18,20 Sept.		 Handout & Homework Perl Basics & Arrays
Slides		 Perl Basics & Arrays
Slides
Week 6
25,27 Sept.		 Handout & Homework More Arrays/Hashes
Slides (from slide 19)		 Hashs, System and DP
Slides
Week 7
2,4 Oct.		 Handout & Homework
2-week homework		 Files, IO Files, IO
Week 8
9,11 Oct.		 Handout 2-D Arrays, Extra Credit
Smith-Waterman Implementation
Needleman-Wusch Implementation
Fibonacci Solution		 External Calls, Functions
Week 9
16,18 Oct.		 Handout & Homework
n50 Solution		 Regular Expressions Regular Expressions
Week 10
23,25 Oct.		 Handout & Homework Regular Expressions Perl Subroutines
Week 11
30 Oct., 1 Nov.

Handout & Homework
Solution(Added 14 Nov)
Test1(Added 14 Nov)
Test2 a(Added 14 Nov)
Test2 b (Added 14 Nov)

Perl Routines, Modules, Objects Bio Perl
Week 12
6,8 Nov.		 Handout & Homework Slides McCutchen Lecture
No Lab
Week 13
13,15 Nov.		 Dan has extra office hours
   Friday 16 Nov.
   Monday 19 Nov.
   1pm - 2pm		 Slides Projects and Review
Week 14
20,22 Nov.		 Homework 10 (optional)

Dan will not have office hours on
   Wed. 21 Nov.		 Slides
Quiz 9 (optional)		 No Class
Week 15
27,29 Nov.
Week 16
4 Dec.		 Poster Session