Monday, November 21, 2016

RNAseq software installation on qbert or Simcenter clusters

====================For hisat2 and supporting programs
Install hisat2

Install stringtie 1.3.1c

Install samtools
The above link is from
See also

====================For R packages
Under shell, run R

Inside of R:

 install.packages('devtools') #A USA mirror site may be chosen


========== Testing the installation
Download the test files and codes from

under shell
$ ./
$./ out

=========Additional R packages
#Please also run the following code to install all packages in R. This may take 10-12 hours.

#A prompt will ask for a mirror site. Any site from USA should work.

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