gdpc(1) [debian man page]

GDPC(1) 						      General Commands Manual							   GDPC(1)

NAME

       gdpc - program for visualising molecular dynamic simulations

DESCRIPTION

       This manual page documents briefly the gdpc command.

       gdpc  is a program, written in C and utilizing GTK, for visualising molecular dynamic simulations. It is a very versatile program and could
       easily be used for other purposes. gdpc reads xyz input and custom formats and can write out pictures of the frames.

AUTHOR

       gdpc was written by Jonas Frantz <jonas.frantz@welho.com>.

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

							  Sun, 24 Apr 2005 02:40:13 -0300						   GDPC(1)

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:

       -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).

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