Perl Programming for Biological Sciences


A course in basic Perl programming with application to bioinformatics.

Perl is the ideal progamming languange for biological data analysis. The course is for students with little or no prior knowledge in perl. Familiarity in using a command line would be beneficial. It is aimed at students who need computational skills to handle large datasets. The course will follow the book “Learning Perl”. It will consist of lectures to introduce all topics and computer assignments to be completed individually after each lecture. It will also include interactive sessions in a computer lab.

Topics include

introduction to command line and writing perl scripts, handling scalar data, control structures, lists/arrays, subroutines, input/output, regular expressions and pattern matching, conditional operators, strings and sorting, loops, hashes, introduction to modules such as bioperl.

By the end of the course, students should:

• understand and be able to implement all fundamental elements of Perl programming
• be able to write programs to perform common bioinformatics tasks
• be able to understand and debug Perl programs
• be competent using a Unix environment

Entry requirements:

Basic Unix knowledge is a benefit but not definite requirement.

Selection criteria:

Selection criteria include correct entry requirements, motivation to attend the course as well as gender and geographical balance.

Responsible teacher:

Matthew Webster

General information

National Course. The course is open for PhD students, postdocs, researchers, and other employees in need of bioinformatic skills within all Swedish universities

Application form

Important dates:

September 23rd: Application deadline

September 27th: You will receive an e-mail stating that you have been accepted to the course or an e-mail stating that you have not been accepted to the course

If you don’t receive information according to the dates above, contact: katarzyna.rosinska@scilifelab.uu.se

Course fee

A course fee of 2100 SEK will be invoiced to accepted participants (includes the study material, coffee, lunches and course dinner).

Organizer of the event

SciLifeLab