Instructor: Susan Bridges, bridges@cse.msstate.edu

Office: Butler 312, tel. 662-325-7505
Office hours: Tuesday Thursday 9:15 - 10:00

Textbook:

James Tisdall, Beginning Perl for Bioinformatics, 2001, O'Reilly & Associates.

Randal L. Schwartz, Tom Phoenix Learning Perl 3rd Edition, July 2001, O'Reilly & Associates.

CGI Programming 101 available on-line

Larry Wall, Tom Christiansen, Jon Orwant, Programming Perl, 3rd ed., July 2000, O'Reilly & Associates. (July 2000).

David Till, Teach Yourself Perl 5 in 21 days available online

Prerequisites: Graduate standing or higher in one of the life sciences. There is no computer science prerequisite.

Course schedule: See schedule

Assignments:

• Program 1 Due Sept. 1
• Program 2 Due Sept. 8
• Program 3 Due Sept. 20
• Program 4 Due Oct. 13
• Program 4 data
• Program 5 Due Nov. 8
• Program 5 data
• Program 6 Due Nov. 22
• Program 6 data test set
• Program 6 data: Predicted Channel Catfish Virus (CCV) ORFs
• Program 6 data: All potential Channel Catfish Virus (CCV) ORFs longer than 27 aa.
• Program 7 Due Dec. 9

Grading:

• 40% tests (2 @ 20% each)

• 25% weekly quizzes

• 15% final

• 20% homework

Attendance: Students are expected to attend all classes. If you must be absent, you should notify the instructor ahead of time if possible. More than 3 unexcused absences will result in a reduction of one letter grade in the course. Students who are auditing the course must attend all lectures. An audit will not be awarded if a student has more than 3 unexcused absences.

Academic honesty policy: Cheating on homework or a quiz will result in an F on the assignment and cheating on an exam will result in an F for the course as well as possible university disciplinary measures. A student must cite any references used in or resources used to complete homework, projects and term papers. Failure to properly cite references can result in a grade of 0 on the assignment. You may ask other students for assistance in debugging your programs, but the program should be your own work. You will learn almost nothing in this class if you do not do the assignments yourself. See the Computer Science Departmental Policy Regarding Professional Conduct. The University policy regarding academic honesty applies to all MSU students.