Computational Skills for Biological Data - Fall 2017

Iowa State University – EEOB/BCB 546X

A graduate course covering critical computational skills for working with biological data

Instructors: Matt Hufford, Dennis Lavrov, & Tracy Heath

Time/Location: Wednesday and Friday, 1:10-2:30 PM in 334 Bessey Hall (plus Monday 1-2:30 for additional lab hours)

Web View: https://eeob-biodata.github.io/BCB546X-Fall2017

Reading Material

Bioinformatics Data Skills by Vince Buffalo

Software Requirements

Please see the installation guide for information and updates about required software.

Course Schedule

The topics covered in this course can all be found here: Fall 2017 Schedule. Be sure to check the schedule for updates.

Syllabus

A copy of the course syllabus can be found at the following link: Fall 2017 Syllabus. A pdf is also available in this GitHub repository.

Week 1

Lecture 1: Introduction to Unix [slides]
- Windows users, please see the installation guide for instructions on installing a command-line tool.
- Material for this week can be found in the Week 1 folder.
Lecture 2: Delving more deeply into UNIX [slides]

Week 2

Lecture 1: Delving even more deeply into Unix [slides]
Lecture 2: Introduction to high-performance computing [slides]

Week 3

Be sure to get a GitHub account: https://eeob-biodata.github.io/BCB546X-Fall2017/Week_03

Lecture 1: Introduction to Version Control using Git [slides]
Lecture 2: More Fun with Git [slides]

Week 5

Lecture 1: Unix continued [slides]
Introduction to R

Week 6

More R (https://eeob-biodata.github.io/R-Data-Skills/)

Week 7

More R (https://eeob-biodata.github.io/R-Data-Skills/)
Genomic Ranges [slides]

In week 8, we will start learning Python! For these lessons, you can work on your own computer. Please be sure to follow the download/install instructions for python that we require for the class: https://eeob-biodata.github.io/BCB546X-Fall2017/Week_08.