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ClustalW: classic progressive multiple sequence alignment
ClustalW is the classic pairwise progressive method for multiple sequence alignment.  It is available within the GCG package on the general access submit head node, as well as on all nodes through the Rocks Bio Roll.

Using ClustalW on HPC

ClustalW is available on all HPC nodes as well as on submit.hpc.edu as a part of the GCG package where it may be easier to run. The Rocks Bio Roll description is quite brief.

See the native ClustalW options with:

clustalw -help 

Consider using ClustalW through its X11 graphical user interface (GUI) ClustalX, available on all head nodes, or through the X11 GUI editors SeaView, also on all head nodes, or GCG's SeqLab, only on the submit head node, unless you need multiple nodes and/or ease of scripting.

 
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