Informatics on High-Throughput Sequencing Data

Welcome

Welcome to Informatics on High-Throughput Sequencing Data 2018.

The course schedule can be found here.

Pre-readings, pre-work, and laptop setup instructions can be found here.

We are using Google Classroom for discussion. Join the Class at https://classroom.google.com, select the “+” symbol in the upper right corner, click on “Join Class” and enter the class code provided to you.

The full course notes are available as a single PDF.


Class Photo

Class Photo


Day 1

Welcome

Ann Meyer

Module 1: Introduction to High-throughput Sequencing

Jared Simpson

Lecture

Module 2: Data Visualization

Hamza Farooq

Lecture

Lab Practical

Module 3: Genome Alignment

Mathieu Bourgey

Lecture

Lab Practical: Connecting to the Cloud

Lecture

  • We have set up 30 instances on the Amazon cloud - one for each student. In order to log in to your instance, you will need a security certificate. If you plan on using Linux or Mac OS X, please download this certificate. Otherwise if you plan on using Windows (with Putty and Winscp), please download this certificate.

Lab Practical

Integrated Assignment

Integrated Assignment


Day 2

Module 4: Small-Variant Calling and Annotation

Mathieu Bourgey

Lecture

Lab Practical

Module 5: Structural Variant Calling

Mathieu Bourgey

Lecture

Lab Practical

Module 6: De Novo Assembly

Jared Simpson

Lecture

Lab Practical

Supplemental


Thank you for attending the Informatics on High-Throughput Sequencing Data workshop! Help us make this workshop better by filling out our survey.