ChIP-seq Practice Exercises

***NOTE: When working on O2, be sure to run this in /n/scratch2/ rather than your home directory .****

# ChIP-Seq Analysis Workflow

1.  Create a directory on /n/scratch2 using your eCommons user ID as the directory name. Within that directory create a directory called HCFC1_chipseq.

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c. Create a separate job submission script to run the shell script you created in b) on all four .fastq files. You have the option of running this in serial or parallel. Take a look at thethe automation lesson to help with setting up the job submission script. 

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