User guide#
This guide is for users that want to use pyopenms to develop and/or prototype scripts and programs for mass spectrometry data analysis and visualization.
You can find the full table of contents in the following. On every page, you can also navigate this table by using the left sidebar. The right sidebar shows the page’s headings and structure.
- Identification by Accurate Mass
- Imports and mzML file path
- Download Example Data
- Centroiding
- Feature Detection
- Feature Map Retention Time Alignment
- Visualization of RTs before and after Alignment
- Feature Linking
- ConsensusMap to Pandas DataFrame
- Accurate Mass Search
- Data Filtering and Imputation
- Annotate :term:Features<features>` with Identified Compounds
- Visualize Consensus Features with Identifications
- Untargeted Metabolomics Pre-Processing