FORUMRunning BRASS on HPC
MarcAntoine Robert asked 11 months ago



Has anyone managed to use BRASS on HPC compute nodes to detect and identify somatic variants. (see link below)

https://github.com/cancerit/BRASS

1 Answers
flefebvre Staff answered 11 months ago



Hi Marc-Antoine, a member of our team recommends having a look at SvABA as an alternative
https://genome.cshlp.org/content/early/2018/03/13/gr.221028.117
It is already installed in the MUGQIC stack on cedar, guillimin, mp2 and others:

Cvmfs Modules_beta2


The same person also reports tools from this github user to be a nightmare to install with many dependencies. 
If installation is your problem you may want to try your luck with Compute Canada at support@computecanada.ca (official cvmfs software stack) or C3G at help@computationalgenomics.ca (mugqic cvmfs stack)