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An untargeted metabolomics workflow that scales to thousands of samples for population-based studies

DOI

This repository contains code/scripts/notebooks used to process untargeted metabolomics data at scale.

In addition to the code in this repository, Google Colab notebooks have been prepared for select batch correction and imputation methods, as well as notebooks for generating peak boundaries for use with Skyline. The links are below:

Imputation

Half-minimum imputation

Random-forst imputation

Batch Correction

Random-forest batch correction

QC normalization

ComBat normalization

Peak boundaries

Peak boundary generation (no iRT)

iRT peak boundary generation

Other

Blank subtraction

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