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required parameter

advanced parameter

+DecoyDatabaseCreate decoy peptide databases from normal ones.

version1.10.0 Version of the tool that generated this parameters file.

++1Instance '1' section for 'DecoyDatabase'

in Input FASTA file containing the database.input file*.fasta

out Output FASTA file where the decoy database will be written to.output file*.fasta

decoy_string_rev String that is appended to the accession of the protein database to indicate a decoy protein.

decoy_string_positionsuffix Should the 'decoy_string' be prepended (prefix) or appended (suffix) to the protein accession?prefix,suffix

appendfalse If this flag is used, the decoy database is appended to the target database, allowing combined target decoy searches.true,false

shufflefalse If 'true' then the decoy hit are shuffled from the target sequences, otherwise they are reversedtrue,false

contaminants Input a FASTA file containing contaminants - if given they are included in the database (recommended)input file*.fasta

log Name of log file (created only when specified)

debug0 Sets the debug level

threads1 Sets the number of threads allowed to be used by the TOPP tool

no_progressfalse Disables progress logging to command linetrue,false

testfalse Enables the test mode (needed for internal use only)true,false