We will meet at FNT 1.104 from Monday - Friday 1-4pm for our classes. You are strongly encouraged to attend in person, but if you would like to attend virtually, use this zoom link: https://utexas.zoom.us/j/91424696609 Zoom Instructions: Please make sure your zoom version is updated ( and that you have a zoom account )-- this is required to join a UT-sponsored Zoom session. See this link for more details about zoom requirements: https://zoom.its.utexas.edu/home Other setup: Please make sure you have an ssh client installed on your computer. All macs come with terminal, so no installation is required. For windows laptops, install putty and winSCP. You will also need a TACC account with multi factor authentication set up. |
Use our summer school reservation when submitting jobs to get higher priority. sbatch --reservation=RNASeq-Mon <batchfile>.slurm sbatch --reservation=RNASeq-Tue <batchfile>.slurm sbatch --reservation=RNASeq-Wed <batchfile>.slurm sbatch --reservation=RNASeq-Thu <batchfile>.slurm sbatch --reservation=RNASeq-Fri <batchfile>.slurm #If the RNAday reservation does not work for you, try the command without the --reservation=RNAday |
This is a course designed to give you an overview of RNA-Sequencing in a hands-on manner. It will comprise of lectures and guided tutorials. For the tutorials, we will be used a canned dataset, but a large part of the last class day will be devoted to practicing the techniques learned on your own dataset. This course has the following objectives:
Name | Affiliation | Expertise | How to contact? |
---|---|---|---|
Dhivya Arasappan (Instructor) | CBRS | Unix, TACC, RNA-Seq, Single cell RNA-Seq, hybrid genome assembly, pacbio | darasappan@austin.utexas.edu or come to FNT1.206D |
Michael Keist (Teaching Assistant) | CNS | Bulk RNA-Seq, R, Unix |
(OPTIONAL) Lecture: Example project downstream analysis
Day 5: Single Cell RNA-Seq And Practice
Extras
Many thanks to Dr. Scott Hunicke-Smith and Dr. Jeff Barrick who taught the first Introduction to NGS course at UT. Many slides and wiki pages have been borrowed and adapted from their initial course. Also, thanks to Dennis Wylie, Anna Battenhouse, Benni Goetz who have also provided some material for this course |