MVE510 Introduction to bioinformatics Autumn 24

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Welcome to the MVE510 - Introduction to bioinformatics. This is the course home page and it contains all the information you need to participate and complete the course.

The course will be held at Chalmers campus with physical lectures and computer exercises.

 

Teachers

Erik Kristiansson, examiner, course administrator, lecturer
Anna Johnning, computer exercise assistant
David Lund, computer exercise assistant

 

Student representatives

Amir Ali Barani
Jenny Marie Dean
Houshi He
Hugo Hilmersson
Lin Zhang

 

The course aims, schedule, and plan

Syllabus with course aims

Course schedule

Course plan 

 

Course material

Please refer to the course plan for lecture-by-lecture reading instructions.

Lecture notes

Exercises on sequence alignment.

Papers

The following scientific papers are a part of the literature of this course. These papers provide an alternative view of the topics discussed in the course. 

Extra exercises

  • Lecture 5

Optional course book

Xinkun Wang, Next-Generation Sequencing Data Analysis, CRC Press, ISBN 9781482217889. The course covers chapters 2-5, 7-9, and 13. 

 

Computer exercises

The course contains four compulsory computer exercises. Computer exercise 1 is examined at the scheduled exercise. Computer exercises 2, 3, and 4 should be handed in as written reports. The computer exercises should be done in groups of a maximum of two persons.

 

Software you need to install if you work from your own computer

Note that you can connect to the computers at Chalmers from remote. Please refer to this page for full details. All software should be available for the computers in SalA as well as the computer rooms in the Chemistry and Math building.

 

Guidelines for writing and submitting reports

The reports should be submitted as a group (of a maximum of two persons) through the Canvas course page. The report should be either in PDF or Word format. All of the code necessary should be included at the end of the report as an Appendix. Please double-check that the submitted code works as intended. Don't forget to add the names and Swedish social security numbers of all persons in the group on the front page. You only need to submit one report per group.

The reports should contain answers to all the questions posed in the exercise sheet. The answers should almost always have some motivation, meaning that even though the question could be answered with a yes or a no, we require a motivation why. Example question: "Do you see any differences?" Describe the observed differences (if the answer is yes), and not only a yes or a no. When you have been asked to generate a figure, this figure should be included in the report. The reports do not need an introduction, method, results, or discussion section, but should include some information about what has been done. Example: “When doing the quality assessment using fastqc, we saw that…”.

Good luck!


Exam

  • 11 January 2024, morning (08:30-12:30)

Previous exams


Examination
This course is examined based on,

  • Written exam: 08:30 on January 16, 2024. This gives you 5 points and determines your grade in the course.
  • Four compulsory computer exercises. When you have passed all four of them you earn 2.5 points. 

 

Course summary:

Date Details Due