(Rahbari, Springer, Zwang et al.)
This repository contains all scripts to reproduce the results and figures presented in the manuscript "An Atlas of the Human Liver Cancer Microbiome".
The required input data will be made public on Zenodo upon publication (https://zenodo.org/). Until then it can be requested via e-mail to fabian.springer[at]embl.de.
- Clone the repository and put the input data into
data/raw/and the metadata intodata/metadata/. - Prepare the datasets for analysis by running the scripts in
src/prepare_data/in the order given by their filenames. - Run the analysis via the scripts in in
src/analysis/. - Generate figures from
src/plotting/.
R version 4.3.1 (2023-06-16) Platform: x86_64-apple-darwin13.4.0 (64-bit)
loaded packages
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