Introduction to Genomic Analysis Workshop Series | Westgrid

[Vanessa Guerra]

Hi Everyone, 

Westgrid is putting together an introductory workshop to Genomics Analysis this summer. Please note that registration for the event is necessary to participate in addition to having a Westgrid account (or potentially a guest account can be created for you). Westgrid accounts are free for SFU students! 

Best, 

Vanessa

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Details:

Monday, June 5, 2017 to Thursday, June 15, 2017

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Online and In-Person at University of British Columbia,

UBC Room # TBC

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Speaker Info:

Phillip Richmond

PhD Student, Wasserman Lab, Centre for Molecular Medicine and Therapeutics

BC Children's Hospital, University of British Columbia

Description

Held over the course of seven days (June 5-9 and June 12-14), this online workshop series will cover:

• an introduction to linux how to use WestGrid / Compute Canada high performance computing resources
• DNA sequencing analysis including variant calling and annotation
• RNA-seq analysis pipelines for identifying differential expression

Within this workshop we will use cutting-edge open source software frequently used by researchers in the field.

Course Details:

• 7 sessions, 1 mid-series 'exam'
• Sessions will take place from June 5-9 and June 12-14
• Sessions will be held from 10am - 12pm Pacific each day
• Participants can attend in-person at the BC Children's Hospital (Room # TBC) or online via videoconference

Session Topics:

• Monday, June 5 - Introduction to Linux I, Basic Command Line
• Tuesday, June 6 - Introduction to Linux II, Interacting with the Queue
• Wednesday, June 7 - Short read mapping and visualization
• Thursday, June 8 - Variant calling - small variants
• Friday, June 9 - Mid-Series Exam
• Monday, June 12 - Variant Annotation
• Tuesday, June 13 - RNA-seq read mapping
• Wednesday, June 14 - RNA-seq II

A detailed syllabus can be found here.

Session Format:

• Each session's timeslot will be divided into:

• 45 minute lecture
• 15 minute Q&A
• 45 minute problem set
• 15 minute wrap-up
• The June 9 session will be used for a mid-series 'exam'

Who Should Attend:

• Any research faculty, grad students, or university staff interested in learning the basic steps of genomic analysis using high performance computing resources.
• The modular setup of the workshop series allows users of any skill level to attend, from those with zero experience in the linux shell, to experienced bioinformaticians eager to learn a new tool set.

Prerequisite Requirements: 

• You need a Compute Canada / WestGrid account to participate in this session, however, a guest account can be created for you if needed.
• When you register for the session, please indicate if you require a guest account.

How to Participate:

• Please aim to register by Monday, May 22. 
• You only need to register once to attend as many or as few sessions as you like.
• Once you are registered, further instructions for the session will be emailed to you.

For more information on this session or if you have questions about the required skills or knowledge, please contact us.

Registration