BBMap is a splice-aware global aligner for DNA and RNA sequencing reads. It is part of the BBTools project and includes other tools like BBDuk.

• Version: 38.95
• Added: September, 2019
• Updated: February, 2022
• Link: https://sourceforge.net/projects/bbmap/

See versions of bbmap which are available:

$ module avail bbmap

Load one version into your environment and run it:

$ module load bbmap/38.95
$ bbmap.sh

Note: BBMap is multithreaded for both indexing and mapping. It will use all available threads on the host unless capped with the t= flag. Please set this to a number that matches the number of CPUs you requested in your SLURM allocation. See bbmap.sh -h for more information.

Notes from the sysadmin during installation:

$ cd /tmp
$ tar xf BBMap_38.95.tar.gz
$ wget https://liquidtelecom.dl.sourceforge.net/project/bbmap/BBMap_38.95.tar.gz
$ sudo mkdir -p /export/apps/bbmap/38.95
$ sudo cp -r bbmap/* /export/apps/bbmap/38.95