Piranha
Description
Piranha is a peak-caller for CLIP- and RIP-Seq data. It takes input in BED or BAM format and identifies regions of statistically significant read enrichment. Additional covariates may optionally be provided to further inform the peak-calling process.
License
GNU General Public License (version 3
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 piranha and load default version of piranha as
module avail piranha/ # list available modules module load piranha # load (default) module
If you wish to keep up to the current system, it is still possible. Simply list all modules by
module avail piranha
and choose explicit version you want to use.
# Show help dialog of the 'Piranha' executable
Piranha -help
# Show help dialog of the 'Simulate' executable
Simulate -help
Documentation
http://smithlabresearch.org/software/piranha/