This graduate course is an introduction to Applied Statistics for Biology.
This is a three unit class which requires 9 hours of work a week (more if you miss a class). The course is open to Stanford students, graduate students take it as Stats 256, Bios 221 or Stats 366.
For instance:
A class that uses R
(Bios 205, Stats 101, Stats 141, Stats 191, Stats 202, Stats 216, …)
Or you have followed the short introductions online available here:
Useful introductory course is the edX course from Harvard taught by Professor Rafa Irizarry
If you have some experience in programming and no experience with R, you can use online resources to bring yourself up to speed see the resources page.
At this time, the course will meet Mondays and Wednesdays at 1.30pm in room 203 in the History Corner building (200).
Please bring your laptops to class.
Food and drink are not allowed and masks will be welcomed.
There will be 8 labs that follow and solidify the material. Please try to do the corresponding lab before the practical session times so that you have questions ready.
Name | Lab and office hour | |
---|---|---|
Professor Holmes | susan@stat.stanford.edu | Mon 3pm in Bowker, Sequoia 207 |
Paula Gablenz | pgablenz@stanford.edu | Friday 4:00-6:00pm, Fishbowl |
Yu Wang | yw1@stanford.edu | Thursday 1:00-3:00pm, Fishbowl |
(It’s preferable to do the reading before the dates below)
The syllabus will be adapted to the audience.
Through the course, you will get acquainted with more than 30 R and
Bioconductor packages.
We will lean heavily on the book, using exercises and examples that are done in detail in its chapters.
Modern Statistics for Modern Biology, Holmes and Huber.
The book for the course is available on Amazon, and Cambridge University Press
Available for free as an online html resource
(You can print the chapters to pdf from your browser)
The data are all available together as a large compressed tar file and will soon be available as an R package.
This is a course in Applied Statistics, you will need access to a laptop or desktop running the current release (R version 4.3) of RStudio and R.
Auditors are limited for this version of the course, which is not a minicourse but a standard ten week instance. We only have a limited number of auditor spots who commit to coming to all the live sessions and doing all the coursework.
If you want to audit the course, we can put you on the waiting list; please email Professor Holmes at sph@stanford.edu with a commitment to attend all live sessions, your R skill level, and an agreement from your PI to release you for 10 hours of work a week for the ten weeks from September, 26th to December, 8th.
You need to complete all the 5 of the 8 Labs with their accompanying quizzes and submit the one take home assignment in Week 5 as a Rmd/pdf report.
You must attend and participate in the biweekly classes on MW at 1.30 (these count as part of the final assessment).
You must hand in the three errors assignment before Thanksgiving (more about this later).
The class project is composed of three major parts: