weight - calculates sequence weights for an alignment

       Sean Eddy
       HHMI/Department of Genetics
       Washington University School of Medicine
       4444 Forest Park Blvd., Box 8510
       St Louis, MO 63108 USA
       Phone: 1-314-362-7666
       FAX  : 1-314-362-2157
       Email: eddy@genetics.wustl.edu

       This manual page was written by Nelson A. de Oliveira <naoliv@gmail.com>,
       for the Debian project (but may be used by others).

                                         Mon, 01 Aug 2005 15:28:08 -0300                               WEIGHT(1)

       This manual page documents briefly the weight command.

       weight is a program that calculates weights for a sequence alignment.

       weight - calculates sequence weights for an alignment

       Available options:

       -b<f> Use BLOSUM weighting scheme at <f> fractional identity.

       -f<f> Filter out seqs w/ fractional ident > <x> [0-1].

       -h     Help; print version and usage info.

       -o<file>
              Save weight-annotated alignment in <outfile>.

       -p     Use position based weight scheme (Henikoff & Henikoff).

       -s<n> Sample <n> sequences at random into a new alignment.

       -v     Use Voronoi weight scheme (Sibbald & Argos).

       --informat<s>
              Specify alignment file format <s>.
              Allowed formats: SELEX, MSF, Clustal, a2m, PHYLIP.

       --quiet
              Suppress verbose banner.

afetch(1),  alistat(1),  compalign(1),  compstruct(1),  revcomp(1),  seqsplit(1),  seqstat(1), sfetch(1),
       shuffle(1), sindex(1), sreformat(1), stranslate(1),

weight [-options] <alignment file>