From MetaCentrum
Jump to navigation Jump to search


OCOCO: the first online consensus caller. Call genomic consensus directly from a SAM/BAM stream. http://arxiv.org/abs/1605.09070


The MIT License


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 ococo and load default version of ococo as

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

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

module avail ococo

and choose explicit version you want to use.

Now you can run OCOCO simply by executing the command


To get usage information, you can run

ococo --help


Documentation is at https://github.com/karel-brinda/ococo