RNA-seq data analysis and its applications

Cleveland Clinic Bioinformatics Workshop #2 (July 2018)

This is our second Bioinformatics workshop in 2018. This time we will cover basic RNA-seq analyses. There are no prerequisites.

For those of you registered for this workshop, we have already created a Linux account and sent each of you your credentials to access the Linux servers for this workshop at LRI (Lerner Research Institute).

Index

1. Set Up Workspace
2. Preparing for RNA-seq analysis
3. HISAT2 Indexing
4. RNA-seq Data
5. Alignment
6. Alignment Visualization
7. Expression
8. Differential Expression
9. Kallisto

Common Linux Commands:

General syntax: <command> -<option> <input1>

• pwd - Print Working Directory
• ls - List items in directory
• cd - Change directory
• mkdir - Make Directory
• export - Set environment variable
• echo - Print contents of variable
• tar - Compress or Extract files

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Brought to you by the Dr. Hwang lab in Department of Quantitative Health Science, LRI, Cleveland Clinic

Click Here To Start:

Setup Workspace

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Once you have finished the workshop, please fill out this review survey:

http://survey.clevelandclinic.org/TakeSurvey.aspx?PageNumber=1&SurveyID=96L0no3MK&Preview=true

We appreciate your feedback!