STAT/BIOSTAT 550:
Statistical Genetics I; Discrete Mendelian traits

Instructor: Elizabeth Thompson
Time: MWF 8.30-9.20
Place: THO 202

SOME OF THE INFORMATION ON THIS (AND LINKED) PAGE(S) MAY NOT BE UPDATED FOR 2012

Single nucleotide polymorphisms are discrete Mendelian traits!

Here is the course announcement.
Here is a draft schedule: only partially updated for this year.
The draft schedule is usually the first place I update and check links.

PLEASE LET ME KNOW ABOUT ANY NON-WORKING LINKS THAT YOU BELIEVE SHOULD BE WORKING.

Course information

Grading:

Course will be graded 30% homework, 30% computing labs, 10% for participation in class summaries and discussions of homeworks/labs, and 30% final project (info posted 4/20,2012).
There is no final exam, apart from the project.
Homeworks or labs will be discussed in class (most) Fridays. Also, I will drop your lowest-scoring homework in computing your overall homework score. (But all 5 labs count.)

Office hours

For brief questions, please see me after class. If you need a longer time, please feel free to email for an appointment. Also, feel free to email me questions about course, lab, or homework material -- if the question is relevant to many in the class, I may respond to the class email, including your query. If I do that, I may edit your query.
I am often available 4.00-5.30 Thursdays, B313-C PDLFD -- apologies to BIOST students.

Kirk Li (kirkli@uw.edu) will be assisting with three main aspects of this class:
(1) He will assist those students NOT from STAT and BIOST with the background Probability and Statistics knowledge (conditional probability, maximum likelihood etc.) required to get the most out of this class.
(2) He will assist all in Computing -- primarily accessing and using linux systems.
(3) He will be updating the StatGen computing web pages that provide information for (2), and also links to software which can be downloaded to your laptops, or used directly on the Biostat linux computers.

Books

Here is the official UW list for books for this course. See also the course announcement.

None of the books are necessary: some may be helpful.

My book might be most useful (except the relevant bits are mostly in notes I'll provide on the web).
Weir's book is useful.
Ott's book will be very useful for those going on through Stat/Biostat 552, but less so for this first course.
Lange's book is there mainly so we can put a library reserve hold on it. It has some very good bits.

Email

is good, but is NOT an "instant-messaging" system. Note my preferred email is eathomp@uw.edu.

Computing

NOTE: See the information above regarding our plan to update and improve StatGen Computing information.
Please also note that BIOSTAT computers are moving this week of March 20-23, so it may be a while before we can get up and running.

The following is OLD -- it may/maynot work.

HERE is a link to StatGen computing page. You will need your UWNet ID to access this page.

HERE is some information on how to get yourself set up for the computing for this class. (NOT YET)

We will be using some of the software for Statistical Genetics installed on the Biostat linux cluster.
I will provide a list of full names and UWNet IDs to the Biostat systems administrator, after the first day of class.
If you miss this list, please get yourself a Biostat account if you do not have one.

Here are some bits and pieces of possible help: they are also linked in the lab docs:

Course materials