Canu

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Description

Canu is a fork of the Celera Assembler designed for high-noise single-molecule sequencing (such as the PacBio RSII or Oxford Nanopore MinION). You can download a release. If you encounter any issues, please report them using the github issues page.

License

GNU General Public License, version 2

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 canu and load default version of canu as

module avail canu/ # list available modules
module load canu   # load (default) module


If you wish to keep up to the current system, it is still possible. Simply list all modules by

module avail canu

and choose explicit version you want to use.

We recommend using this software with useGrid=false parameter because of its strange behavior using PBS.

Documentation

http://canu.readthedocs.org/en/stable/

Homepage

http://canu.readthedocs.org/en/stable/index.html