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Untargeted pipeline demo (WIP)
PR to add demo using vimms to generate synthetic data so we can test the performance of a typical untargeted data processing pipeline in LC/MS metabolomics.
So we generate chemicals in various experimental setup, write their mzml files + corresponding ground truth. The mzml files are then passed into a pipeline that tries to infer back chemical identities from spectral data. Since it's synthetic data, we can easily evaluate pipeline performance for all these steps:
- Peak picking
- Alignment
- Group related peaks like isotopes and adducts together.
- Identification, by matching to standards / spectral library.
Still work in progress, do not merge yet!!