Detonate

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Description

DETONATE (DE novo TranscriptOme rNa-seq Assembly with or without the Truth Evaluation) consists of two component packages, RSEM-EVAL and REF-EVAL. Both packages are mainly intended to be used to evaluate de novo transcriptome assemblies, although REF-EVAL can be used to compare sets of any kinds of genomic sequences.

License

GNU GPL

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 detonate and load default version of detonate as

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


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

module avail detonate

and choose explicit version you want to use.

Documentation

http://deweylab.biostat.wisc.edu/detonate/

Homepage

http://deweylab.biostat.wisc.edu/detonate/