Patrice Koehl
Department of Computer Science
Genome Center
Room 4319, Genome Center, GBSF
451 East Health Sciences Drive
University of California
Davis, CA 95616
Phone: (530) 754 5121
koehl@cs.ucdavis.edu




Modeling and Data Analysis in Life Sciences: 2016

Aims and Objectives

This module aims at providing students with concepts and general techniques that are essential for modeling, analyzing and visualizing data as well as for testing and validating models, with applications in the domain of biology. Upon completion of the module, the students will be able to appreciate the use of Mathematics and Scientific Computing in Biophysical Sciences. They will also be proficient with MATLAB, a data analysis package that will prove useful for their research projects.

My goals are to help you to:
  • Understand what data means
  • Formulate and assess hypotheses
  • Perform simulations
  • Learn a data analysis package, MATLAB

Format

Students enrolled in this module will participate in an intensive boot camp like workshop over a period of two weeks. This boot camp will include:

  • Six lectures on mathematical concepts for data analysis and modeling
  • Six practical sessions on applications in biology, using MATLAB.

Schedule:

Week 1: August 15-19
Monday Tuesday Wednesday Thursday Friday
8:00 - 10:00 Lecture 1
Tools of the Trade
Lecture 2
Data: Statistics

 

 
Lecture 6
Simulations
10:00 - 12:00
 

 

 

 

 
12:00 - 14:00
 

 

 

 

 
14:00 - 17:00 Lab 1
Getting to know Matlab

 
 
Lab 2
Graphing and Programming
Lab 3
Data analysis and Modeling

 

 
Week 2: August 22-26
Monday Tuesday Wednesday Thursday Friday
8:00 - 10:00 Lecture 4
Fourier analysis
Lecture 5
Clustering

 

 
Lecture 6
Simulations
10:00 - 12:00
 

 

 

 

 
12:00 - 14:00
 

 

 

 

 
14:00 - 17:00 Lab 4
Fourier analysis

 
 
Lab 5
Clustering data
Lab 6
Monte Carlo simulations

 

 

Academic Conduct

The rules for conduct in classes can be summarized with three principles:

  • Be polite.
  • Don’t cheat.
  • Don’t lie.

Be polite

As adults meeting in a professional context, we should all behave professionally: this means being polite and respectful to everyone we deal with.
As the instructor, it is my responsibility to teach as well as I can and to be available, polite and respectful to you.
You are responsible for treating me and your fellow students politely and with respect.

Don’t cheat

As the instructor, it is my responsiblity to make assignments that are fair, to grade fairly, to look for cheating, and to refer students who cheat to Student Judicial Affairs for possible sanctions.
As students, it is your responsibility to avoid cheating and to discourage other students from cheating.

Don’t lie

Cheating is one form of lies, but there are other. Manipulating data, false claim of ownership of an assignment/idea, plagiarism are all forms of lies. Do not lie to the instructor, and even more importantly, do not lie to yourself!






  Page last modified 13 August 2016 http://www.cs.ucdavis.edu/~koehl/