If you happen to see a question you know the answer to, please do chime in and help your fellow community members. We encourage our fourm members to be more involved, jump in and help out your fellow researchers with their questions. GATK forum is a community forum and helping each other with using GATK tools and research is the cornerstone of our success as a genomics research community.We appreciate your help!
Test-drive the GATK tools and Best Practices pipelines on Terra
Check out this blog post to learn how you can get started with GATK and try out the pipelines in preconfigured workspaces (with a user-friendly interface!) without having to install anything.
How to get and install Firepony
Binary packages for various versions of Linux are available at http://packages.shadau.com/
Below are installation instructions for Debian, Ubunto, CentOS and Fedora. For other Linux distributions, the Firepony source code is available at https://github.com/broadinstitute/firepony along with compilation instructions.
On Debian or Ubuntu systems
The following commands can be used to install Firepony:
sudo apt-get install software-properties-common sudo add-apt-repository http://packages.shadau.com/ sudo apt-key adv --keyserver keyserver.ubuntu.com --recv-key 285514D704F4CDB7 sudo apt-get update sudo apt-get install firepony
Once this initial install is done, updates will be automatically installed as part of the standard Ubuntu/Debian update procedure.
On CentOS 7 and Fedora 21 systems
On CentOS 7, the following commands can be used to install Firepony:
sudo curl -o /etc/yum.repos.d/packages.shadau.com.repo \ http://packages.shadau.com/rpm/centos-7/packages.shadau.com.repo sudo yum install firepony
For Fedora 21, use the following sequence of commands:
sudo curl -o /etc/yum.repos.d/packages.shadau.com.repo \ http://packages.shadau.com/rpm/fedora-21/packages.shadau.com.repo sudo yum install firepony
Any subsequent updates will automatically be installed when running ‘yum update’.