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      Genome-Wide Association Studies

Introduction and Lectures
Intro to the Workshop and Core
Dr. Anthony Musolf Talk
What is Bioinformatics/Genomics?
Cheat Sheets
Software and Links
Logging In
Cluster Computing
Data Reduction
Files and Filetypes
Project setup
Preprocessing raw data
Alignment with BWA
Variant calling using GATK
Comparison of freebayes, GATK, and deepvariant output
Data Analysis
Plink Step by Step TDT
Plink Step by Step TDT (solutions)
wAnnovar Annotation
Plink Step by Step (Non FBAT excercise)
Setup in R
GWAS Visualization
Closing thoughts
Workshop Photos
Github page
Biocore website

Online Workshops with Slack

Text based communication will be conducted via a Slack channel. Staff will be monitoring the Slack channel to answer questions (and schedule a Zoom break out room if needed). If you know the answer to someone else’s question, feel free to answer it.

Direct Mentions

If you want to make sure that a particular person sees your comment in Slack, mention them by name, preceded by an “@” symbol.

mentioning another user


We like to use threads to keep messages on a single subject together. To reply to a comment in a thread, hold your mouse over the comment, and select the option “respond in thread.”

starting a thread

In the Slack desktop client, this opens a new window to the right of the main channel.

replying to a thread

Pinned Posts

Pinning a post can keep it from getting lost when the channel gets busy. To pin a post, hold your mouse over the post, select “more,” and choose “pin post.”

pinning a post

Pinned posts in a channel can be found quickly by clicking the channel information icon and selecting “Pinned” in the sidebar that appears.

finding pinned posts

Searching Slack

Slack history is searchable. You can specify which channels to search, which people sent a message, and message content.

searching slack