This is the command seqwordse that can be run in the OnWorks free hosting provider using one of our multiple free online workstations such as Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator
PROGRAM:
NAME
seqwords - Generates DHF files from keyword search of UniProt.
SYNOPSIS
seqwords -keyfile infile -spfile infile -outfile outfile
seqwords -help
DESCRIPTION
seqwords 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
-keyfile infile
This option specifies the name of keywords file (input). This contains a list of
keywords specific to a number of SCOP or CATH families and superfamilies used by
SEQWORDS to search a sequence database.
-spfile infile
This option specifies the name of the sequence database (input) to search.
Output section
-outfile outfile
This option specifies the name of the DHF file (domain hits file) (output). A 'domain
hits file' contains database hits (sequences) with domain classification information,
in the DHF format (FASTA-like). The hits are relatives to a SCOP or CATH family (or
other node in the structural hierarchies) and are found from a search of a sequence
database. Files containing hits retrieved by PSIBLAST are generated by using
SEQSEARCH, hits retrieved by a sparse protein signatare by using SIGSCAN or various
types of HMM and profile by using LIBSCAN. Default value: test.hits
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