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  • BIO9905FBI1

BIO9905FBI1 - Introduction to Bioinformatics for Biosystematics

Course content

Basic programming skills are becoming essential for handling large datasets and performing complex analyses in biosystematics. This course aims to provide the students with tools to solve practical problems often encountered in biosystematic research. The students will be introduced to the GNU/Linux environment and programming using Bash and Perl . Other programming languages may be used for specific tasks.

Learning outcomes

Upon completion of the course, the students should be comfortable working with a command-line interface, well oriented in the basics of Bash and Perl programming, and familiar with methods for computerized process control and data analysis.

Admission

If the course is part of your plan for your Ph.D.-programme at the MN Faculty, UiO, please contact the study administration at your Department for registration.
If you have been admitted to a Ph.D.-programme at an alternative Faculty or learning institution, and the course enters into the approved training part of the Ph.D.-programme there, you must within a given deadline apply for the status as visiting student
Apply by sending an e-mail to Magnus Popp including a short (maximum 300 words) description of your research project and how the course would benefit your research, and a CV. Deadline for applications is August 31.
The course is arranged by the Research School in Biosystematics - ForBio - and travel and accomodation is refundes for ForBio members. ForBio may also support mast students who are clearly qualified and need the course for their thesis work. See http://www.nhm.uio.no/english/research/forbio/ for more information on ForBio and membreship.

Prerequisites

Recommended prior knowledge

Course participants are expected to have knowledge in evolutionary biology and phylogenetic analyses of molecular dat corresponding to BIO4200 - Molecular Evolution and BIO4210 - Classification and Phylogeny . No programming experience is required.

Teaching

The course is partly distance based. Two days with intensive lectures and computer exercises in Oslo are followed by five weekly two hours online lectures. Each lecture is followed by a home assignment (usually a programming problem) that should be solved before the next lecture.
Literature: Handouts
Additional information: You will need a computer througout the course, and a webcam and a microphone to participate in the online lectures. Please bring the computer, webcam and microphone you intend to use througout the course to the first meeting. Make sure you have administrator privilegies and can install software on the computer.

September 27-28: Intensive lectures and computer exercises in Oslo.
October 5, 12, 19, 26 and November 2: Online lectures.

Exam information

A programming project will be compulsory and must be presented within four weeks after the final lecture. The project will be marked as passed/not passed.

Exam resources

No special exam resources are allowed.

Assessment and grading

Students are awarded either a passing or a failing grade. Read more about the grading system .

Explanations and appeals

Students can request an explanation of their grades, and can also appeal against their grades or make a complaint about formal examination errors. Read more about explanations and appeals

Possibility of make-up exams and re-takes

Students who fail, will be allowed to deliver a revised report.

Exam options for students with special needs

Students may apply for access to alternative exam resources or exam forms on the basis of chronic illness and/or special needs that create a marked disadvantage to other students in the exam situation. Mothers who are breastfeeding may apply for extra time to complete the exam.

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