DOI https://dx.doi.org/10.1038/s42255-021-00348-0
correspondence should be addressed to: sgibbons@systemsbiology.org,orwoll@ohsu.edu, or nathan.price@systemsbiology.org
The content is divided into seperate Python and R scripts corresponding to different parts of the analysis presented in the paper:
Arivale cohort: 01_Arivale_analysis.md - microbiome processing, calculating alpha- and beta-diversity metrics for the Arivale cohort
02_Arivale_demographics_figure_2 - analysis reported in Figure 2
03_Metabolomics_figure_3.md - analysis reported in Figure 3
MrOS cohort:
MrOS_01_gut_microbiome.md - microbiome processing, calculating alpha- and beta-diversity metrics for the MrOS cohort
MrOS_02_Healthy_aging_analysis-spearman.md - analysis reported in Figure 4
MrOS_03_survival_analysis.md - analysis reported in Figure 5 and table 2
MrOS_04_differential_abundance_analysis.md - analysis reported in Figure 5