weight

Langue: en

Version: 262424 (debian - 07/07/09)

Section: 1 (Commandes utilisateur)

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:
-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.

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).