Introduction to Computational Genetics

Instructor: Juliana Acosta-Uribe acostauribe@ucsb.edu

This is an introductory course intended to explore the overlap between genetics and statistics using computational methods. While providing a foundation in biological genetics, we will explore different tools and programs that will help us manipulate and study large genomic datasets.

The syllabus (spanish/english) provides an outline of the course, detailing the topics that will be covered, the software that we will be using and the recomended readings for the week. A great book to partner with the first two modules of the training is Human evolutionary genetics: origins, peoples and disease. Jobling, Mark, and Chris Tyler-Smith. Garland Science, 2019.

This course is an introductory series divided in three modules:

• Introduction to computational genetics
• Population genetics
• Genetic epidemiology

This repository is structures as follows:

computational-genetics-intro
│   README.md
│   syllabus-espanol.pdf
|   syllabus-english.pdf
│
└───Module_1_introduction
│   │
│   └───week_1
│       │   reading_1.pdf
│       │   code_1.sh
│       │   lecture_video
│       │   ...
│   
└--- ...

It is important that you watch the lecture videos so you can understand the concepts underlying the code.

Required Software:

• Visual Studio Code
  If your operating system is Windows, you will need to install the Windows Subsystem for Linux (WSL2) with Ubuntu Linux distribution (default). Here is s tutorial made by Microsoft, and here is an istallation tutorial made by VSCode on istalling WSL2 in your VSCode.

Down the line we will be installing and using:

• R
• python
• PLINK
• VCFtools
• BCFtools and others