7. Custom Spectral Processing
mzStudio allows custom processing scripts to be applied to data. The script should be a .py file with a function called processor_function() that accepts a list of (mz, intensity) pairs, processes this data, and then returns a processed list of (mz, intensity) pairs for the mzStudio.
For example deisotope_filter.py consists of:
To select this spectrum as a custom processing script, select Settings/Set Spectral Processor. This opens a dialog:
Browse to the script. Once loaded, if no errors are detected, you should see:
If errors are detected, you may modify the script and click Load to re-load the script.
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To apply the script to the data, press Q; this will process the scan with the selected script and display the result.
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For simplicity, we assume processing scripts will generate centroided data. Therefore, once processing is activated, the ‘view centroid’ option is selected automatically.
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Exemplary spectral processing scripts can be found in the GitHub repository:
https://github.com/BlaisProteomics/mzStudio/tree/master/example_processing_scripts
| Script | Function |
|---|---|
| deiso_reduce_charge_filter.py | Performs deisotoping and charge reduction of HCD data. |
| deisotope_filter.py | Deisotopes HCD data. |
| signal_to_noise_filter.py | Performs signal to noise filtering of data (meant for ion trap scans). |