Comet parameter: database_name

• A full or relative path to the sequence database, in FASTA format, to search. Example databases include RefSeq or UniProt.
• Database can contain amino acid sequences or nucleic acid sequences. If sequences are amino acid sequences, set the parameter “nucleotide_reading_frame = 0”. If the sequences are nucleic acid sequences, you must instruct Comet to translate these to amino acid sequences. Do this by setting “nucleotide_reading_frame” to a value between 1 and 9.
• Databases can also be Comet indexed peptide database format (with .idx extension), currently intended for real-time, on-the-fly searches only.
• There is no default value if this parameter is missing.

Example:

database_name = yeast.fasta
database_name = C:\local\db\yeast.fasta
database_name = /usr/local/db/yeast.fasta