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).