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scopparse |
This package is still being developed.
Please ignore this program until further details can be documented.
All further queries should go to Jon Ison. (Jon Ison)
% scopparse
Mandatory qualifiers: [-infilea] infile Name of scop classification file (raw format dir.cla.scop.txt_X.XX for input) [-infileb] infile Name of scop description file (raw format dir.des.scop.txt_X.XX for input) [-outfile] outfile Name of scop classification file (embl format output) Optional qualifiers: (none) Advanced qualifiers: (none) General qualifiers: -help boolean Report command line options. More information on associated and general qualifiers can be found with -help -verbose |
Mandatory qualifiers | Allowed values | Default | |
---|---|---|---|
[-infilea] (Parameter 1) |
Name of scop classification file (raw format dir.cla.scop.txt_X.XX for input) | Input file | dir.cla.scop.txt_1.57 |
[-infileb] (Parameter 2) |
Name of scop description file (raw format dir.des.scop.txt_X.XX for input) | Input file | dir.des.scop.txt_1.57 |
[-outfile] (Parameter 3) |
Name of scop classification file (embl format output) | Output file | Escop.dat |
Optional qualifiers | Allowed values | Default | |
(none) | |||
Advanced qualifiers | Allowed values | Default | |
(none) |
Program name | Description |
---|---|
aaindexextract | Extract data from AAINDEX |
cutgextract | Extract data from CUTG |
domainer | Reads protein coordinate files and writes domains coordinate files |
funky | Reads clean coordinate files and writes file of protein-heterogen contact data |
groups | Removes redundant hits from a scop families file |
hetparse | Converts raw dictionary of heterogen groups to a file in embl-like format |
nrscope | Converts redundant EMBL-format SCOP file to non-redundant one |
pdbparse | Parses pdb files and writes cleaned-up protein coordinate files |
pdbtosp | Convert raw swissprot:pdb equivalence file to embl-like format |
printsextract | Extract data from PRINTS |
prosextract | Builds the PROSITE motif database for patmatmotifs to search |
rebaseextract | Extract data from REBASE |
scope | Convert raw scop classification file to embl-like format |
scopnr | Removes redundant domains from a scop classification file |
scopseqs | Adds pdb and swissprot sequence records to a scop classification file |
tfextract | Extract data from TRANSFAC |