CCmetagen
Description
CCMetagen processes sequence alignments produced with KMA, which implements the ConClave sorting scheme to achieve highly accurate read mappings. The pipeline is fast enough to use the whole NCBI nt collection as reference, facilitating the inclusion of understudied organisms, such as microbial eukaryotes, in metagenome surveys. CCMetagen produces ranked taxonomic results in user-friendly formats that are ready for publication or downstream statistical analyses.
License
Public
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 ccmetagen and load default version of ccmetagen as
module avail ccmetagen/ # list available modules module load ccmetagen # load (default) module
If you wish to keep up to the current system, it is still possible. Simply list all modules by
module avail ccmetagen
and choose explicit version you want to use.
Documentation
https://github.com/vrmarcelino/CCMetagen