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domainreso.1e

Langue: en

Version: 06/26/2010 (ubuntu - 24/10/10)

Section: 1 (Commandes utilisateur)

NAME

domainreso - Remove low resolution domains from a DCF file.

SYNOPSIS

domainreso -cpdbpath dirlist -dcfinfile infile -threshold float -dcfoutfile outfile
domainreso -help

DESCRIPTION

domainreso

is a command line program from EMBOSS ("the European Molecular Biology Open Software Suite"). It is part of the "PROTEIN:3D STRUCTURE" command group(s).

OPTIONS

Input section

-cpdbpath dirlist

This option specifies the location of domain CCF file (clean coordinate files) (input). A 'clean cordinate file' contains coordinate and other data for a single PDB file or a single domain from SCOP or CATH, in CCF format (EMBL-like). The files, generated by using PDBPARSE (pdb files) or DOMAINER (domains), contain 'cleaned-up' data that is self-consistent and error-corrected. Records for residue solvent accessibility and secondary structure are added to the file by using PDBPLUS. Default value: ./

-dcfinfile infile

This option specifies the name of DCF file (domain classification file) (input). A 'domain classification file' contains classification and other data for domains from SCOP or CATH, in DCF format (EMBL-like). The files are generated by using SCOPPARSE and CATHPARSE. Domain sequence information can be added to the file by using DOMAINSEQS.

Required section

-threshold float

This option specifies the threshold for inclusion (Angstroms). Domains exceeding the threshold for inclusion (Angstroms) will not be given in the output file. Default value: 2.8

Output section

-dcfoutfile outfile

This option specifies the name of DCF file (domain classification file) (output). A 'domain classification file' contains classification and other data for domains from SCOP or CATH, in DCF format (EMBL-like). The files are generated by using SCOPPARSE and CATHPARSE. Domain sequence information can be added to the file by using DOMAINSEQS. Default value: test.scop

BUGS

Bugs can be reported to the Debian Bug Tracking system (http://bugs.debian.org/emboss), or directly to the EMBOSS developers (http://sourceforge.net/tracker/?group_id=93650&atid=605031).

SEE ALSO

domainreso is fully documented via the tfm(1) system.

AUTHOR

Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>

Wrote the script used to autogenerate this manual page.

This manual page was autogenerated from an Ajax Control Definition of the EMBOSS package. It can be redistributed under the same terms as EMBOSS itself.

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