| ACTIVITIES | PERCENTAGES |
|---|---|
| Problem Sets | 50% |
| Midterm | 20% |
| Project | 25% |
| Participation | 5% |
Table of Contents
Syllabus
Syllabus
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Prerequisites
Engineering Concentration
Theory of Computer Science
Course Offering
This course is offered to both undergraduates and graduates. The undergraduate version of the course includes a midterm and final project. The graduate version of the course includes additional assignments and a more ambitious final project, which can lead to a thesis or publication.
Grading
Your grade in this course will be based on the following:
- Problem sets: Given out on a bi-weekly basis. There will be a total of 5 problem sets in this course.
- Exams: There is a midterm but no final for this course.
- Projects: You will be expected to complete and submit a project.
- Participation: The degree to which you participate in lectures and recitations via attendance and discussion.
The contribution of each of the above to your final grade will be as follows:
Problem Sets
Each problem set will consist of two components:
- Basic: Required for all students. Contains 4 problems.
- Advanced: Required only for students enrolled in 6.895 (G). Contains 1 problem, typically based on recent papers in the area.
Projects
As a part of this course, you will be expected to complete and submit a project. Each project may be done in a team consisting of at most two students. We will distribute more detailed project requirements and suggested project topics as the term progresses.
Collaboration Policy
You are welcome to collaborate on problem sets and projects. However:
- You must work independently on each problem before you discuss it with others.
- You must write the solutions on your own.
- You must acknowledge outside sources and collaborators. Remember: collaboration ≠ outsourcing.
Textbooks
This course will use the following two textbooks:
Durbin, Richard, Sean R. Eddy, Anders Krogh, and Graeme Mitchison. Biological Sequence Analysis: Probabilistic Models of Proteins and Nucleic Acids. Reprint ed. Cambridge, UK: Cambridge University Press, 1999. ISBN: 0521629713.
Jones, Neil, and Pavel Pevzner. An Introduction to Bioinformatics Algorithms. Cambridge, MA: MIT Press, 2004. ISBN: 0262101068.