6. Feature Detection
mzStudio allows visualization of MS1-based spectral features that are detected using the multiplierz feature detection algorithm. For more information on the algorithm, please refer to: https://github.com/BlaisProteomics/multiplierz/wiki/multiplierz.mzTools.featureDetection
A “feature” consists of all peaks in the isotopic envelope of a peptide through its entire elution profile.
Step 1: Make feature file. From the Features menu, select "Make Feature File".
- Select raw file, and multiplierz report.
- Processing will produce a file containing information about detected features (a .feature file) and a feature annotated excel file where features are mapped to PSMs.
Step 2: Import feature files into mzStudio. From the Features Menu, select "Import Feature File".
- Select the feature annotated xls file
- Select the feature file
Step 3: Toggle Feature Detection. This will turn on visualization of features. From the Features Menu, select "Toggle Feature Detection".
Peaks corresponding to features (including isotopes) are highlighted in red. Boxes are drawn around each feature. If the feature has an identified sequence, it is displayed (if not, it will be labeled as ‘No ID’).
Clicking on a feature tab opens a window containing a list of MS1 scans where the feature was detected and corresponding MS/MS scans that map to the feature:
Clicking on a row label navigates to the selected scan.
