Introduction to Next Generation Sequencing Analysis
Overview
Instructor: Michael Dickens
Time: Friday, October 6, 2023 10:00AM-12:30PM CT
Location: Blocker 220
Prerequisites: Current HPRC account
This short course covers concepts of sequence mapping, variant calling and ChIP-seq analysis utilizing tools available on the HPRC clusters.
Course Materials
Presentation slides
The presentation slides are available as downloadable PDF files.
- Introduction to NGS (Fall 2023): PDF
- Introduction to NGS (Spring 2023): PDF
- Introduction to NGS (Fall 2022): PDF
- Introduction to NGS (Spring 2022): PDF
- Introduction to NGS (Fall 2021): PDF
- Introduction to NGS (Spring 2021): PDF
- Introduction to NGS (Fall 2020): PDF
- Introduction to NGS (Summer 2020): PDF
- Introduction to NGS (Spring 2020): PDF
- Introduction to NGS (Fall 2019): PDF
- Introduction to NGS (Spring 2019): PDF
- Introduction to NGS (Fall 2018): PDF
- Introduction to NGS (Spring 2018): PDF
- Introduction to NGS (Fall 2017): PDF
- Introduction to NGS (Spring 2017): PDF
Agenda
This course focuses, among others, on the following topics:
- NGS Technology
- NGS Tools on Grace
- Quality Control (QC)
- Template Job Scripts
- Visualize BAM Alignment Files
- Sequence Variant Calling
- RNA-seq
- ChIP-seq
- Biocontainers
Note: During the class sessions many aspects of the material will be illustrated live via a login to Grace. Attendees are welcome to follow these parts with their own laptops. They will need to configure their laptops to use the TAMULink wireless network. Relevant details on this can be found at: http://tamulink.tamu.edu
You are encouraged to contact the HPRC helpdesk with any questions regarding Grace.