• Got the email from west campus or stem cell center titled 'your sequencing data is ready'?
• You can now have your data analyzed on one of the Yale HPC clusters 
  • all by yourself,
  • from mapping to differential expressed genes
  • from PCA to volcano plots and heatmaps
  • from venndiagrams to geneset enrichment
  • all finished within an hour, no matter your have 6 samples or 60

Requirements:

1. apply for an account on farnam and/or ruddle: it just takes you ONE minute!
   Go to account request page of yale center for research computing
   • check farnam, also check ruddle if you have sequenced on west campus/YCGA. Note: it might takes a few work days for your accounts to be approved.
   • Don't waste time to log in, once you get the approved email, I can help you log in a minute. 

2. A laptop/desktop with MAC OS X, or Linux;      or Windows with Mobaxterm installed (a free version works).
3. Walked through Command-line Bootcamp  or other basic linux command tutorials.

Installation:

       A one-line command on the HPC (will be detailed during workshop)

How to use: (will be detailed during workshop)

1.  copy the link to your project from your sequencing-data-ready email
2.  prepare a sample info file with two columns (folder name, group name)
3.  modify a config file by adding the group contrasts desired (an example below)
   - A-Ctrl
   - B-Ctrl
4. Then paste a one-line command and sit back for one hour or less
5. Finally, paste a one-line command and download everything from the HPC cluster to your computer.

What to expect during the two-hour workshop:

• We will walk through a case study, from setting up to reporting.
• I will help up to ten qualified attendees (see requirements) get set up and run the example sequencing project on farnam.
• Workflow explained and results interpreted.

I can take follow up email requests from attendees to improve/add functional blocks to the workflow