- 31 Oct 2011 Welcome aboard!! Here we will publish all the relevant information of the course. Have a nice semester
- 31 Oct 2011 STRIKE Due to the strike on Monday, November 31st between 12:00 and 14:00, the lesson will start at 14:00 (not 14:15)
- 21 Nov 2011 ANOTHER STRIKE Due to the strike on Tuesday (November 22nd) There will be no class tomorrow
- 28 Nov 2011 Extension Exercise 3 submission dead line has been extended to Sunday, December 11th.
- 28 Nov 2011 The class on Monday 05/12/2012 will be a questions & answeres session on the material we've learn thus far (for both Mon/Tue groups)
- 15.11.10 Debugging problems If you have problem debugging, try downloading and running this script: fixMyDebugger.pl
- 18 Dec 2011 Feedback for Ex3 was sent by email. If someone had sent us Ex3 and did not receive any answer, please contact us.
- 19 Dec 2011 Next class is canceled due to the strike. Check the webpage for updates.
- 24 Dec 2011 Strike is over - the course is back to normal and exercise 4 due date has been updated to 01/01/2012.
- 03 Jan 2012 As promised - two little Eclipse tips:
Remove auto-complete of (),{},"" etc.: Windows -> Preferences -> Perl EPIC -> Editor make changes in "Smart typing"...
If you have problem with the output console try the following: Windows -> Preferences -> Run/Debug -> Console:
check "Fixed width console"; uncheck "Limit console output".
- Install BioPerl (for windows) InstallBioperl.exe
- Mac useres: here is an Eclipse for mac zip file. read this (bit rough) guide for Eclipse and BioPerl installation for your mac.
- The exam is still bugging you? here it is with our suggested solution
Course program - may be subject to changes
(the presentation will be available from here in the morning of each lesson)
Syllabus (in Hebrew): Syllabus.doc
Aim: The aim of this course is to introduce the participant to basic concepts of programming, to enable the participant to write simple programs, which are useful in biological research, and to develop the ability to work in an interdisciplinary environment of biologists and computer scientists.
Prerequisites: There are no prerequisites.
Obligatory asignments: 5-7 exercises (roughly every 2 weeks).
See exercise submission guidelines for further information.
The final exam will be on a computer.
Course dates:
Group 01: Sherman 03, Mondays, 12:15-15:00
Group 02: Sherman 03, Thuesdays, 10:15-13:00
Instructors:
David (Dudu) Burstein (email: davidbur@tau.ac.il)
Ofir Cohen (email: ofircohe@tau.ac.il)
Tel: 6409245
Office hours: By appointment
Message board:
Exams from previous years
Exams from 2007 - 2011 (with suggested solutions) can be found here.
Vide1o recording of the lessons
The lectures of 2008 were video-recorded and are available at the TAU video servrices website
=> Enter your username and password =-> connect
=> "Biology first degree"
=> "Perl Programming for Biology"
Note that there is a sound problem in the first hour of the first lecture... sorry
Previous years:
2011
2010
2009
Books
1. Beginning Perl for Bioinformatics / by James Tisdall, O'Reilly, 2001
2. Learning Perl / by Randal L. Schwartz and Tom Phoenix, O'Reilly, 2001
3. Programming Perl / by Larry Wall, Tom Christiansen and Jon Orwant, O'Reilly, 2000