Mugsy

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Description

Mugsy is a multiple whole genome aligner. Mugsy uses Nucmer for pairwise alignment, a custom graph based segmentation procedure for identifying collinear regions, and the segment-based progressive multiple alignment strategy from Seqan::TCoffee. Mugsy accepts draft genomes in the form of multi-FASTA files and does not require a reference genome.

Availability

Version v1r2.3. Freely available for every user.

Licence

Perl Artistic License

Use

Initialize module with command:

module add mugsy-v1r2.3

Running example

mugsy --directory $SCRATCHDIR --prefix mygenomes xxx1.fasta xxx2.fasta xxx3.fasta

Documentation

Documentation is available at http://mugsy.sourceforge.net/#started.

Program manager

meta@cesnet.cz

Homepage

http://mugsy.sourceforge.net/