Biology 381 - Computational Biology

Nicholas J. Gotelli

Spring 2017

This site contains course materials, scripts, homeworks, and resources for Computational Biology, Spring 2017.

Lecture Outlines, R-Scripts, & Homework Assignments

Date Lecture Scripts Homework
January 17 GitHub - -
January 18 - - Homework #1
January 19 Thinking On Paper - -
January 24 RStudio - -
January 25 - - Homework #2
January 26 RStudio II - -
January 31 Beamer Slides R-Scripts -
February 1 - - Homework #3
February 2 Importing Data R-Scripts -
February 7 Regular Expressions R-Scripts -
February 8 - - Homework #4
February 9 Regular Expressions II R-Scripts -
February 14 Atomic Vectors R-Scripts -
February 15 - - Homework #5
February 16 Data Structures R-Scripts -
February 21 Subsetting R-Scripts -
February 22 - - Homework #6
February 23 Probability Distributions R-Scripts -
February 28 Probability Distributions II R-Scripts -
March 1 - - Homework #7
March 2 Functions R-Scripts -
March 7 TOWN MEETING DAY RECESS - -
March 8 - - Homework #8
March 9 Structured Programming R-Scripts -
March 14 SPRING RECESS - -
March 15 SPRING RECESS - -
March 16 SPRING RECESS - -
March 21 Guest Lecture: Dr. Brandon Ogbunugafor - -
March 22 - - Homework #9
March 23 NO CLASS - -
March 28 Control Structures R-Scripts -
March 29 - - Catch-up Day
March 30 Control Structures II R-Scripts -
April 4 Control Structures III R-Scripts -
April 5 - - Homework #10
April 6 Control Structures IV R-Scripts -
April 11 Randomization Tests R-Scripts -
April 12 - - Spatial Analysis
April 13 Markov Models R-Scripts -
April 18 Markov Models II R-Scripts -
April 19 - - R Presentations: Makukhov, Mickuki, Southgate, Kazenal
April 20 Apply Functions R-Scripts -
April 25 Base Graphics I R-Scripts -
April 26 - - R Presentations: Nevins, Clark, Keller, Looi
April 27 Lecture Outline R-Scripts -
May 2 Research Presentations: Clark, Southgate, Keller, Looi - -
May 3 - - R Presentations: Alger, Burnham, Ashlock; Research Presentations: Nevins, Makukhov, Kazenal
May 4 Research Presentations: Alger, Mickuki, Burnham, Ashlock - -

Class Work

Student GitHub Portfolio Research Presentation R Presentation Fun Fact
Samantha Alger GitHub Portfolio Research R I am a beekeeper.
Lauren Ash GitHub Portfolio Research R While interning at Busch Gardens in Florida, I made friends with Rosie the elephant because she would sway and stare at me for hours.
Lauren Ashlock GitHub Portfolio Research R I have a 13 year old cockatiel named Rosie.
Alex Burnham GitHub Portfolio Research R I used to own a business called “Burnham Custom Amplification” where I hand built boutique custom speaker cabinets for guitar and bass players.
Peter Clark GitHub Portfolio Research R I enjoy plants that grow on cliffs.
Nick Gotelli GitHub Portfolio Research R For 33 years, I have raised pure-bred, show-quality chow chows.
Melanie Kazenal GitHub Portfolio Research R After completing my undergraduate degree, I worked for two years as an immigration law paralegal.
Erin Keller GitHub Portfolio Research R I can speak Norwegian! Jeg kan snakker norsk!
Alex Looi GitHub Portfolio Research R I like to run, a lot, and I have a personal running coach who lives in San Fran.
April Makukhov GitHub Portfolio Research R As a reward for getting through Comps at the end of this semester, I plan to enroll in River Dancing classes in Colchester starting this summer.
Emily Mickuki GitHub Portfolio Research R I have scars on my arm from being bitten by a sloth!
Matthias Nevins GitHub Portfolio Research R I was home-schooled until 8th grade.
Morgan Southgate GitHub Portfolio Research R Over this winter break, I attended Dave Barrington’s Tropical Plant Systematics field course in Costa Rica.

Class R Presentations

Author Title
Morgan Southgate Null Model Analysis With EcoSimR
Melanie Kazenal Data Wrangling with plyr