Clview

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Description

This is a graphical, interactive tool for inspecting the ACE format assembly files generated by CAP3 or phrap. Beasides the ACE files, the program also supports a custom cluster layout format for the overview of a possible multiple alignments generated just from pairwise alignments, where no detailed nucleotide level alignment is needed and provided. The "containment clustering" program (nrcl) mentioned in the TGI Clustering tools(TGICL) above can generate such a "cluster layout" file (*.lyt).

License

Free Artistic Licence

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 clview and load default version of clview as

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


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

module avail clview

and choose explicit version you want to use.

Notice: This application use or needs GUI – graphical interface. To use the application in graphical mode see Remote desktop or X-Window.

Documentation

No documentation available.

Homepage

http://compbio.dfci.harvard.edu/tgi/software/