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WEIGHT(1) General Commands Manual WEIGHT(1)

NAME

weight - calculates sequence weights for an alignment

SYNOPSIS

weight [-options] <alignment file>

DESCRIPTION

This manual page documents briefly the weight command.

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

OPTIONS

Available options:

Use BLOSUM weighting scheme at <f> fractional identity.
Filter out seqs w/ fractional ident > <x> [0-1].
Help; print version and usage info.
Save weight-annotated alignment in <outfile>.
Use position based weight scheme (Henikoff & Henikoff).
Sample <n> sequences at random into a new alignment.
Use Voronoi weight scheme (Sibbald & Argos).
Specify alignment file format <s>.
Allowed formats: SELEX, MSF, Clustal, a2m, PHYLIP.
Suppress verbose banner.

SEE ALSO

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

AUTHOR

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