Difference between revisions of "BBMap 2016"
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== Introduction == | == Introduction == | ||
BBMap is a splice-aware global aligner for DNA and RNA sequencing reads. It can align reads from all major platforms – Illumina, 454, Sanger, Ion Torrent, Pac Bio, and Nanopore. BBMap is fast and extremely accurate, particularly with highly mutated genomes or reads with long indels, even whole-gene deletions over 100kbp long. [https://jgi.doe.gov/data-and-tools/bbtools/bb-tools-user-guide/bbmap-guide/ ¹] | |||
== Installed version(s) == | == Installed version(s) == | ||
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You will see a list of callable shell scripts (*.sh). | You will see a list of callable shell scripts (*.sh). | ||
For example you | For example you will find ''bbmap.sh''. <br/> | ||
By just calling ''bbmap.sh'' you will get more information about the script. <br/> | |||
If you want to find out more about BBMap on the HPC Cluster, you can use the command | If you want to find out more about BBMap on the HPC Cluster, you can use the command | ||
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Always remember: this command is case sensitive! | Always remember: this command is case sensitive! | ||
== Documentation == | == Documentation == | ||
The full documentation can be found [https://jgi.doe.gov/data-and-tools/bbtools/bb-tools-user-guide/bbmap-guide/ here]. | The full documentation can be found [https://jgi.doe.gov/data-and-tools/bbtools/bb-tools-user-guide/bbmap-guide/ here]. | ||
Latest revision as of 15:32, 14 August 2019
Introduction
BBMap is a splice-aware global aligner for DNA and RNA sequencing reads. It can align reads from all major platforms – Illumina, 454, Sanger, Ion Torrent, Pac Bio, and Nanopore. BBMap is fast and extremely accurate, particularly with highly mutated genomes or reads with long indels, even whole-gene deletions over 100kbp long. ¹
Installed version(s)
This version is installed and currently available on environment hpc-env/6.4:
BBMap/38.61b-foss-2017b
Using BBMap
BBMap is a set of different tools. If ypu want to know, which tools are installed and usable, just load the module as shown above and type in:
ll $EBROOTBBMAP
You will see a list of callable shell scripts (*.sh).
For example you will find bbmap.sh.
By just calling bbmap.sh you will get more information about the script.
If you want to find out more about BBMap on the HPC Cluster, you can use the command
module spider BBMap
This will show you basic informations e.g. a short description and the currently installed version.
To load the desired version of the module, use the command, e.g.
module load hpc-env 6.4 module load BBMap
Always remember: this command is case sensitive!
Documentation
The full documentation can be found here.
