Computes an additive series to quantify a peptide in a set of samples.
| pot. predecessor tools | AdditiveSeries | pot. successor tools |
| FeatureFinderCentroided | - | |
| IDMapper |
This module computes an additive series for an absolute quantification of a peptide in a set of samples. The output consists of a GNUplot script which can be used to visualize the results and some XML output for further processing.
In this version, the application computes the additive series as a ratio of the intensities of two different peptides. One of these peptides serves as internal standard for calibration.
The command line parameters of this tool are:
AdditiveSeries -- Computes an additive series to quantify a peptide in a set of samples.
Version: 1.11.1 Nov 14 2013, 11:18:15, Revision: 11976
Usage:
AdditiveSeries <options>
Options (mandatory options marked with '*'):
-in <files>* Input files separated by blanks (valid formats: 'featureXML')
-out <file>* Output XML file containg regression line and confidence interval (valid
formats: 'XML')
-mz_tolerance <tol> Tolerance in m/z dimension (default: '1')
-rt_tolerance <tol> Tolerance in RT dimension (default: '1')
-concentrations <concentrations>* List of spiked concentrations
-feature_rt <rt> RT position of the feature (default: '-1')
-feature_mz <mz> M/z position of the feature (default: '-1')
-standard_rt <rt> RT position of the standard (default: '-1')
-standard_mz <mz> M/z position of the standard (default: '-1')
GNUplot options:
-plot:write_gnuplot_output Flag that activates the GNUplot output
-plot:out_gp <name> Base file name (3 files with different extensions are created)
Common TOPP 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 |