seqwords1e
Generates dhf files from keyword search of uniprot.
Usage
seqwords -keyfile
infile
-spfile
infile
-outfile
outfile
seqwords -help
Overview
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
Releases
Unchanged in 7 releases since Debian 7 (Wheezy).