| 12/16: |
The final exam is scheduled for 12:00 p.m. in HO 110 on Monday,
December 17th.
|
| 12/12: |
The solutions for the sample final have been posted. Click
here to view
(or here, for Postscript format).
|
| 12/04: |
Click here to view the sample final exam (or
here for HTML format). Solutions will be discussed
in recitation on Thursday. |
| 12/14: |
This semester's last set of office hours for the final exam will be held on
Sunday, December 16, from 2:00 to 4:00 p.m. in Upson 328.
|
| 12/11: |
The final review session will be held on Thursday, December 13th, in Upson 211.
It will start at 6:30 p.m., and will continue until 8:30, or until the last of the questions have
been answered (whichever is later). The review will be held in an office-hours format: it will
be primarily a question-and-answer sessions, and everyone can come and go whenever they
like. The sample final exam solutions will be posted by Wednesday night: if afterwards there are any
additional questions about the sample final, feel free to ask them at the review session. Finally,
if you cannot make it to the review session on Thursday, please let me know ASAP. I will try to
schedule additional hours to accommodate any questions anyone may have.
-- Good luck with the exams, Leonid!
|
| 12/06: |
There will be a review session for the final. Most likely, it will be held on Thursday,
December 13th, after 6:00 p.m. The location is yet to be determined. Please watch this web
page for updates. If you cannot make it at that time, please let me know.
|
| 12/06: |
The optional homework has been posted. It is due on the day
of the final, December 17th. If you submit this homework, the your lowest homework grade
for the semester will be dropped. |
| 12/06: |
The semester's last handout, discussing global optimization and smoothing, has been posted
here.
|
| 12/04: |
More office hours for the project will be held on Wednesday, 12/05 in Leonid's office,
from 1:00 p.m. to 5:00 p.m. Once again, we will move to Upson 328 if more than a few people
show up. |
| 12/02: |
Office hours for the project are on Monday, from 1:00 p.m. to 5:00 p.m.,
in Leonid's office (or Upson 328, if the office gets too crowded). Office
hours for Wednesday to be announced. |
| 11/29: |
Today's lecture notes on protein potentials have been posted
here. Today's recitation notes on differential equations and Matlab are available
here. |
| 11/27: |
Solutions and
grader's comments
for homework 4 have been posted. Homework 5
solutions have also
been posted.
|
| 11/27: |
Today's lecture notes on initial
value solvers have been posted.
|
| 11/21: |
Tuesday's lecture notes on Gaussian Random Numbers have been posted
here. |
| 11/16: |
Project 2 is now up. Please visit the course web page
frequently, in case there are updates or clarifications. |
| 11/16: |
Thursday's lecture notes on pseudo-random numbers have
been posted. |
| 11/13: |
The first project has been graded. The project solution and grader's comments have been
posted here. The results are very impressive:
the average is 44.4, and the median is 46. If you have any regrade requests, please contact
your friendly neighborhood TA. |
| 11/13: |
Today's lecture notes are now posted.
|
| 11/12: |
Lecture notes from last week have been posted:
click here for Tuesday, 11/06
and here for Thursday, 11/08. |
| 11/12: |
The lecture notes from Thursday, November 1, have been posted
here. Once more, sorry for the delay. |
| 11/10: |
In all likelihood, I'll be back on the job on Monday. I'll hold
office from 3 to 5 p.m., in my office in Upson 5142. If many people come,
we will probably move to Upson 328. |
| 11/10: |
The fifth homework has been posted here.
It is due on Tuesday. Once again, please excuse the delay. |
| 11/08: |
Please forgive me for having been out of touch. I have been very ill
this entire week. I hope to be back on the job by Monday, though I am not
even sure of that at the moment. In light of my illness, and Professor
Elber's absence earlier in the week, the fifth homework will be extended
until Tuesday, 11/13. I will attempt to have office hours for the homework
on Monday, 11/12. If I am not better by the end of the week, Professor Elber
will attempt to find a temporary replacement TA.
See you all soon, Leonid.
|
| 10/29: |
The checksum for the matrix of pairwise alignment scores with gap opening and
extension is 14681. This is the sum of all the elements in the matrix, including
the diagonal elements, which represent the alignment of a sequence against itself.
The matrix should be symmetric.
|
| 10/25: |
The fourth homework is now posted.
It is due on Thursday, 11/01.
|
| 10/25: |
Thursday's lecture notes on function minimization have been posted
here. The
Matlab Examples section has been updated with the programs for performing
sequence alignment. |
| 10/23: |
Tuesday's lecture notes on function optimization have been posted
here. |
| 10/23: |
You can use the following checksum to verify the correctness of your minumum-distance algorithm
for project 1: the sum of all the elements in your 11x11 distance matrix should add up to
approximately 1586.
|
| 10/19: |
See an important clarification
about the svd() function. |
| 10/18: |
I will be holding walk-in office hours in my office, Upson 5142, on Monday
from 2:30 p.m. to 5:00 p.m., and Wednesday from 2:30 p.m. to 3:30 p.m. in
addition to my regularly scheduled office hours. Please contact me if you
think you cannot make it during those hours. Other walk-in times may be
available as well; but please email me or call my office to make sure that
I am there. |
| 10/18: |
The Project 1 description has been
updated to include an overview of Matlab's svd() function. See the
section titled "Comparing Protein Structures". |
| 10/18: |
The lecture notes on alignment with gap opening and extension have
posted here. Today's recitation notes
have been posted here. The Matlab Examples section has been updated with
code from today's recitation notes. |
| 10/18: |
The solution
for homework 3 has been posted. |
| 10/10: |
There are a couple of changes in the project. Please take a look at
the Corrections and Addenda section of the
Project 1 web page. |
| 10/12: |
The handout on sequence alignment has been posted
here. |
| 10/06: |
The first project has been
posted. Please excuse the one-day delay: there have been some problems
with the CS web server on Thursday night. |
| 09/26: |
Solutions and
grader's comments for the second homework
have been posted. |
| 09/26: |
This week's lecture notes have been posted. Homework 3
has been extended until this Thursday. |
| 09/20: |
This week's lecture notes have been posted. There is no
assigned homework. |
| 09/14: |
By popular demand, additional notes on the derivation of the cubic spline have been posted
here. |
| 09/14: |
There is a typo in the definition of curvature in the third homework that was handed out in
class. The curvature should be defined as norm(de/dt), rather than just de/dt.
That is, curvature is the length of the vector de/dt. The typo has been
corrected on the website. |
| 09/11: |
Homework and lecture notes for this week have been posted. New matlab examples have been added. |
| 09/06: |
TA's office hours have been posted. |
| 09/06: |
The homework has not been handed out in class this week, but it has been posted on the web.
Because not everyone in the class is aware that the second homework is available, it can be handed
on either Thursday, 09/13, or Tuesday, 09/18. However, the third homework will still be due at its
usual time, on Thursday, 09/20. |
| 09/04: |
Lecture notes for this week, and new homework, due next Thursday, have been posted. Also, added a
Matlab examples section that contains viewable, downloadable Matlab scripts
from the lecture notes. |
| 09/03: |
The course web page is up. The syllabus, the first set of lecture notes, and the first
homework have all been posted. TA's office hours will be announced within the next couple of days. |