Legend:
required parameter
advanced parameter
+MassCalculatorCalculates masses and mass-to-charge ratios of peptide sequences
version1.10.0
Version of the tool that generated this parameters file.
++1Instance '1' section for 'MassCalculator'
in
Input file with peptide sequences and optionally charge numbers (mutually exclusive to 'in_seq')input file*.txt
in_seq[]
List of peptide sequences (mutually exclusive to 'in')
out
Output file; if empty, output is written to the screenoutput file*.txt
charge[0]
List of charge states; required if 'in_seq' is given
formatlist
Output format ('list': human-readable list, 'table': CSV-like table, 'mass_only': mass values only, 'mz_only': m/z values only)
list,table,mass_only,mz_only
average_massfalse
Compute average (instead of monoisotopic) peptide massestrue,false
fragment_typefull
For what type of sequence/fragment the mass should be computed
full,internal,N-terminal,C-terminal,a-ion,b-ion,c-ion,x-ion,y-ion,z-ion
separator
Field separator for 'table' output format; by default, the 'tab' character is used
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