BBMap
Description
Short read aligner for DNA and RNA-seq data. Capable of handling arbitrarily large genomes with millions of scaffolds. Handles Illumina, PacBio, 454, and other reads; very high sensitivity and tolerant of errors and numerous large indels. Very fast.
Licence
The BBMap package is open source and free to use with no restrictions.
Usage
Upcoming modulesystem change alert!
Due to large number of applications and their versions it is not practical to keep them explicitly listed at our wiki pages. Therefore an upgrade of modulefiles is underway. A feature of this upgrade will be the existence of default module for every application. This default choice does not need version number and it will load some (usually latest) version.
You can test the new version now by adding a line
source /cvmfs/software.metacentrum.cz/modulefiles/5.1.0/loadmodules
to your script before loading a module. Then, you can list all versions of bbmap and load default version of bbmap as
module avail bbmap/ # list available modules module load bbmap # load (default) module
If you wish to keep up to the current system, it is still possible. Simply list all modules by
module avail bbmap
and choose explicit version you want to use.
Documentation
https://sourceforge.net/projects/bbmap/files/?source=navbar