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=head1 NAME
coils-wrap - runs ncoils three times to give you a three-window output
=head1 SYNOPSIS
coils-wrap [OPTION]
=head1 DESCRIPTION
coils-wrap runs ncoils three times to give you a three-window output.
ncoils is a program that compares a sequence to a database of known parallel two-stranded coiled-coils and derives a similarity score. By comparing this score to the distribution of scores in globular and coiled-coil proteins, the program then calculates the probability that the sequence will adopt a coiled-coil conformation.
=head1 OPTIONS
=over
=item -i
input file in FASTA format
=item -o
output file
=item -r
raw output file, default: `<output file>_raw'
=item -m
matrix type; set matrix (MTK or MTIDK)
=item -w
weight a&d = b,c,e,f&g (boolean)
=back
=head1 EXAMPLES
C<coils-wrap -m MTIDK -i /usr/share/doc/ncoils/1srya.fa -o /tmp/coils.out -r /tmp/coils_raw.txt && less /tmp/coils.out /tmp/coils_raw.txt>
C<ncoils -win 14 < /usr/share/doc/ncoils/1srya.fa>
=head1 FILES
=over
=item F</usr/share/coiledcoils/*.mat>
matrix data files
=back
=head1 AUTHOR
R.B. Russell, A.N. Lupas, 1999
=head1 COPYRIGHT AND LICENSE
GPL
Based on Lupas, Van Dyck & Stock (1991) Science 252,1162-1164
=head1 SEE ALSO
L<ncoils(1)>, L</usr/share/doc/coils/README>, L<http://www.russelllab.org/cgi-bin/coils/coils-svr.pl>
=over
=item A Lupas: Prediction and Analysis of Coiled-Coil Structures. Methods in Enzymology, 266, 513-525, 1996
=item A. Lupas, M. Van Dyke, and J. Stock: Predicting coiled coils from protein sequences. Science, 252, 1162-1164, 1991
=back
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