Labs – Dee Ruttenberg

BIO331 – Lab 08: Genome Assembly

Principles of Genome Assembly in R

Challenge: Assemble a 1 billion piece puzzle where the pieces are all made of only 4 colors and repeated shapes.

Dee Ruttenberg (Adapted from Rob Harbert)

BIO331 – Lab 07: Bioinformatics and BLAST

Working with BLAST in R

The rBLAST package provides R code tools that implement access to the commandline BLAST tools in R. Today we will use this package to build a new BLAST database, run BLAST…

Dee Ruttenberg (Adapted from Rob Harbert)

BIO331 – Lab 06: Data Visualization

Working with data frames and data wrangling in R

Initial Plot: A simple bar plot displaying the number of cars for each class in the mpg dataset.

Dee Ruttenberg (Adapted from Scott Wolf, Michelle White)

BIO331 – Lab 05: Data Wrangling

Working with data frames and data wrangling in R

Reminder If you have not installed pak, do so now. You can install it from CRAN with install.packages("pak") Once installed, load it with library(pak).

Dee Ruttenberg (Adapted from Scott Wolf, Michelle White)

BIO331 – Lab 04: Data/String Wrangling

Data IO and String Wrangling with Regex in R

This week’s assignment can be found here.

Dee Ruttenberg (Adapted from Scott Wolf, Michelle White)

BIO331 – Lab 03: Control flow

Simple control flow in R

Make sure that you are comfortable with git and have a basic understanding of how to run code in R. If you need a refresher, please see the Lab 2 materials and external…

Dee Ruttenberg (Adapted from Scott Wolf, Michelle White)

BIO331 – Lab 02: Intro to git

Basic programming in R and Python and version control with git

Labs can be found here.

Dee Ruttenberg (Adapted from Scott Wolf, Michelle White)

BIO331 – Lab 01: Prerequisites

Setting up in preparation for next week

This course focuses on the R and Unix programming languages, with a main focus on R. Git will also be taught and used for the assignments. A good code editor and environment (…

Dee Ruttenberg (Adapted from Scott Wolf, Michelle White)