DarkMetabolome_figures

Code and tables to produce the Figures to the DarkMetabolome paper

To reproduce a figure

1. Clone the repository using git clone https://github.com/YasinEl/DarkMetabolome_figures.git
2. Set the working directory to /DarkMetabolome_figures
3. Run the R script to reproduce the figure of your choice

Raw data sources

Feature analysis raw data can be downloaded from MSV000093526.

Additionally, zenodo.13890851 and zenodo.14218309 were used for ion type analysis.

Rarefaction analysis jobs

Library annotation of MSV000080673 for rarefaction analysis of fecal samples: https://gnps2.org/status?task=82f4b17608ae41ac892aff3cd9df7b30

Library annotation of ST002336 for rarefaction analysis of plasma samples: https://gnps2.org/status?task=a769812c768442638f0619c8a3cf5744

Library annotation of ST002769 for rarefaction analysis of urine samples: https://gnps2.org/status?task=dd713048b4004d30a2464dbd1804e46a