Computational Statistics - Course (52608) and Project (52607)
Mondays 10:30-13:15, Soc. 2305
- CORRECTION TO THE FINAL: Total number of markers is 15 times 23 = 345, and not 354.
- The final is published below.
- The The final exam will be a take-home exam. I will put it on the WEB on Wednesday, Feb. 10, at 14:00. It should be submitted, either to my mail box or to in the form of an email attachment, no later than Friday, Feb. 12, at 14:00.
- It is recommended that you read the relevant sections in the book before class. Instructions regarding the required reading for each class are given below.
- Homework assignments will be handed during class. It is recommended that you try to address the assignments before class. Solutions to the assignments will be discussed in class and/or given on the web. It is required that you go over the solutions and understand them.
- Two take-home assignments will be given during the first semester. At the end of the course there will be a final exam. Each one of the midterm assignments will determine 20% of the final score. The final exam will determine 60% of the score.
- The second semester will be project part of the course. Projects associated with the subject matter of the course will be assigned to the participants. The material will be present in class by the students and related statistical issues will be investigate. The outcome of the investigation will be summarized in writting.
- For the class of 19-10-09: Read the the first chapter of the class notes:
on Background in Statistics and R and do Homework 1.
(This is the code presented in class. A solution to the homework can be found here.)
- For the class of 26-10-09: Read the second chapter of the book:
on Introduction to experimental genetics and do Problem 2.1 on page 49.
(The code used in the chapter.)
- For the class of 2-11-09: Read the rest of the second chapter of the book:
on Introduction to experimental genetics and do Problem 2.2 on page 49.
- For the class of 9-11-09: We will start talking about the testing of the correlation
between a single locus and the phenotype in experimental genetics and do Problem 4.1 on page 94.
- For the class of 16-11-09: We continued the discussion on testing with a single marker.
- For the class of 23-11-09: We will finish the discussion on testing with
a single marker and start talking about scanning the entire genome. The first part deals with controlling the false
detection rate and is considered in the chapter on Genome Scan.
- For the class of 23-11-09: We will continue the discussion on the material in the chapter on Genome Scan. You encouraged to read the material and do Problem 4.3 on page 94.
- For the class of 07-12-09: We will finish the discussion on the material in the chapter on Genome Scan and start dealing with the issue of statistical power, which is included
in the chapter on Statistical Power and Confidence Region. In class we ran this code.
For homework do Problem 1.2 on page 21, assuming that the cost for phenotyping a mouse is 30$, the cost for primers is 70$ and the cost for each genotyping is 2$. (A solution to the homework can be found here. The solution uses this code.)
- For the class of 14-12-09: We will discuss the homework and the first project. We will finish the discussion on experimental genetics and will stat the discussion on mapping in a human population. We will begin reading the chapter on Affected Sib-Pairs.
- For the class of 28-12-09: We will continue the discussion on IBD mapping in ASP.
Do Homework problem 9.1 in Affected Sib-Pairs.
- For the class of 18-1-10: We discussed the solution of HW Question 9.1 and HW Question 4.1.
- Project 1: To be submitted no later than 28-12-09.
CAN BE SUBMITTED IN PAIRS.
- Project 2: To be submitted no later than 10-2-10.
CAN BE SUBMITTED IN PAIRS.
- Final: To be submitted no later than 12-2-10 at 14:00.
MUST BE SUBMITTED INDIVIDUALLY.
- The table of Contents of tej book can be found here.