We will be meeting daily in MEZ 4.136 http://www.utexas.edu/maps/main/buildings/mez.html. If you have any trouble finding the room or building, please check your email for contact information and directions.
The course will be built based on 2 ~90 minute sections per day for 4 days, with the goal of teaching you how to preform the standard next-generation sequencing analysis to identify genomic variants. This will be accomplished through: presentations covering essential information to all types of analysis, guided tutorials to reinforce the essential concepts, and self guided tutorials to help you learn the skills that are most specific to your own analysis. By the end of this course, we hope to achieve the following goals:
Name | Initials | Affiliation | Expertise |
---|---|---|---|
Daniel Deatherage | DD | Barrick Lab | Unix, Python, NGS Library Prep, Capture, Rare Variant Identification |
Dacia Leon | DL | Barrick Lab | R, NGS Library Prep |
We wish to acknowledge a great deal of help with creating these web pages and materials from previous instructors of the Intro to NGS Bioinformatics course taught in 2013 and the Genome Variant Analysis Course taught in 2014-2016 (feel free to look through old materials at any point). Two individuals warrant special mention, the former director of the GSAF Scott Hunicke-Smith, and Jeffrey Barrick were the driving force behind this class for a number of years, and many of the tutorials presented here were developed by them or adapted from their work. |
Now that you have completed the above tutorials you have accomplished the necessary skills for basic genome sequence analysis and identify real genetic variants out of the noise of genomic sequencing. The next step will be in learning additional skills to refine your abilities to better suit your personal analysis. The remaining tutorials should be completed based on what you think would be the most helpful to your specific analysis, we've divided them up into broad categories, and tried to explain what the purpose of each tutorial is, but if you are unsure just ask.
The first half of today's class will be done as a continuation of tutorials that you are most interested in. As was the case yesterday, choose your own tutorial, and please don't hesitate to ask us what tutorials would be good for you to be working on given your data! After the break, we will be go over a brief review to put things back in prospective and give you a tutorial on how to do things the 'normal way' on TACC which means using the job submission system and commands files before giving you the rest of the time to go through tutorials and ask any remaining questions.