The materials in the "Assigned Reading" column are directly related to the topics covered in class. Readings under "Additional Topics" are strictly optional and will not be covered on the exams.
In some cases, the same material is covered in more than one textbook. You have the choice of selecting the text that presents a treatment of the material most to your liking. It is your responsibility to make sure that you understand the material covered in class and you may read as many or as few of these texts needed to achieve that goal.
Access to full Lecture Notes Lecture Notes
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1. | Aug. 26 |
Introduction
Pairwise sequence alignment ( lecture notes , pp. 1 - 3) |
Review biology and algorithms background | |
2. | Aug. 28 |
Readyness Quiz |
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3. | Sep. 2 |
Global pairwise sequence alignment ( lecture notes , Section 1.1) |
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4. | Sep. 4 |
Local pairwise alignment
( lecture notes , Section 1.2) Local alignment examples. |
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5. | Sep. 9 |
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6. | Sep. 11 |
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7. | Sep. 16 |
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8. | Sep. 18 |
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9. | Sep. 23 | |||
10. | Sep. 25 |
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11. | Sep. 30 | |||
12. | Oct. 2 |
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13. | Oct. 7 | |||
14. | Oct. 9 | |||
Oct. 14 & Oct. 16 |
Mid semester break, NO CLASS. |
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15. | Oct. 21 | |||
16. | Oct. 23 | |||
17. | Oct. 28 | |||
18. | Oct. 30 | |||
Nov. 4 |
Election Day; No class |
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19. | Nov. 6 | |||
20. | Nov. 11 |
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21. | Nov. 13 |
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22. | Nov. 18 |
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23. | Nov. 20 | |||
24. | Nov. 25 |
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Nov. 27 |
Thanksgiving Holiday: No class |
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25. | Dec. 2 |
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26. | Dec. 4 |
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This exam is closed book. You may bring four pages (or two pages, front and back) of your own notes. You will not need a calculator. |
The time and date of the final exam are determined by the registrar's
office and are beyond my control. You must take the final exam at the
time scheduled.
Until the date of the final is determined, you should not make plans to leave for winter vacation before the end of the exam period. |
Last modified: Aug. 25 2025.