Long Ranger2.x (latest), printed on 05/26/2020
Long Ranger pipelines run on Linux systems that meet these minimum requirements:
The pipelines also run on clusters that meet these minimum requirements:
In addition, Long Ranger must be run on a system with the following software pre-installed:
bcl2fastq 2.17 or higher is preferred and supports most sequencers running RTA version 1.18.54 or higher. If you are using a NovaSeq, please use version 2.20 or higher. If your sequencer is running an older version of RTA, then bcl2fastq 1.8.4 is required by Illumina.
Long Ranger calls small variants with a user-supplied GATK. We recommend this mode. For specific GATK version requirements, please refer to Using GATK.
Long Ranger can also use a bundled version of FreeBayes, which may have slightly reduced indel call performance.
All other software dependencies come bundled in the Long Ranger package.
Loupe is a desktop application with the following minimum requirements: