A tool for peak detection on streamed profile data (low-memory requirements). Executes the peak picking with high_res algorithm.
| pot. predecessor tools |  PeakPickerHiRes | pot. successor tools |
| BaselineFilter | any tool operating on MS peak data (in mzML format) | |
| NoiseFilterGaussian | ||
| NoiseFilterSGolay |
Reference:
Weisser et al.: An automated pipeline for high-throughput label-free quantitative proteomics (J. Proteome Res., 2013, PMID: 23391308).
The conversion of the "raw" ion count data acquired by the machine into peak lists for further processing is usually called peak picking or centroiding. The choice of the algorithm should mainly depend on the resolution of the data. As the name implies, the high_res algorithm is fit for high resolution (orbitrap or FTICR) data.
Finding the right parameters for the is explained in the TOPP tutorial.
The command line parameters of this tool are:
INI file documentation of this tool:
For the parameters of the algorithm section see the algorithm documentation: PeakPickerHiRes
In the following table you, can find example values of the most important algorithm parameters for different instrument types.
These parameters are not valid for all instruments of that type, but can be used as a starting point for finding suitable parameters.
| Q-TOF | LTQ Orbitrap | |
| signal_to_noise | 2 | 0 |