kkapuria3

import paramiko
k = paramiko.RSAKey.from_private_key_file("/Users/whatever/Downloads/mykey.pem")
c = paramiko.SSHClient()
c.set_missing_host_key_policy(paramiko.AutoAddPolicy())
print "connecting"
c.connect( hostname = "www.acme.com", username = "ubuntu", pkey = k )
print "connected"
commands = [ "/home/ubuntu/firstscript.sh", "/home/ubuntu/secondscript.sh" ]
for command in commands:
	print "Executing {}".format( command )

kkapuria3

Differential expression analysis with edgeR

This is a tutorial I have presented for the class Genomics and Systems Biology at the University of Chicago. In this course the students learn about study design, normalization, and statistical testing for genomic studies. This is meant to introduce them to how these ideas are implemented in practice. The specific example is a differential expression analysis with edgeR starting with a table of counts and ending with a list of differentially expressed genes.

Past versions:

• Tuesday, April 26, 2016