Digests a protein database in-silico.
| pot. predecessor tools |  Digestor   | pot. successor tools | 
| none (FASTA input) | IDFilter (peptide blacklist) | 
This application is used to digest a protein database to get all peptides given a cleavage enzyme. At the moment only trypsin is supported.
The output can be used as a blacklist filter input to IDFilter, to remove certain peptides.
The command line parameters of this tool are:
Digestor -- Digests a protein database in-silico.
Version: 1.11.1 Nov 14 2013, 11:18:15, Revision: 11976
Usage:
  Digestor <options>
Options (mandatory options marked with '*'):
  -in <file>*                 Input file (valid formats: 'fasta')
  -out <file>*                Output file (peptides) (valid formats: 'idXML', 'fasta')
  -out_type <type>            Set this if you cannot control the filename of 'out', e.g., in TOPPAS. (valid: 
                              'idXML', 'fasta')
  -missed_cleavages <number>  The number of allowed missed cleavages (default: '1' min: '0')
  -min_length <number>        Minimum length of peptide (default: '6')
  -max_length <number>        Maximum length of peptide (default: '40')
  -enzyme <string>            The type of digestion enzyme (default: 'Trypsin' valid: 'Trypsin', 'none')
                              
Common UTIL options:
  -ini <file>                 Use the given TOPP INI file
  -threads <n>                Sets the number of threads allowed to be used by the TOPP tool (default: '1')
  -write_ini <file>           Writes the default configuration file
  --help                      Shows options
  --helphelp                  Shows all options (including advanced)
INI file documentation of this tool:
| OpenMS / TOPP release 1.11.1 | Documentation generated on Thu Nov 14 2013 11:19:24 using doxygen 1.8.5 |