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