Long Ranger2.x, printed on 11/14/2024
| Analysis software for 10x Genomics linked read products is no longer supported. Raw data processing pipelines and visualization tools are available for download and can be used for analyzing legacy data from 10x Genomics kits in accordance with our end user licensing agreement without support. |
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: