This is code to accompany Multitable Methods for Microbiome Data Integration by Sankaran and Holmes.
To rerun any particular method, edit the associated read_data() command into read_data(simulate=TRUE), and put simulated data sim.rda in a data/ subdirectory of the main repo. To run all methods, just use bash run_all.sh in the main repository.
Alternatively, you can pull a docker image with the associated data and all packages pre-installed by visiting this page.
Implementations of specific methods are given in the dimension_red (CCA, CCpnA, CoIA, LDA, PCA, PCA-IV, and PMD) and supervised (Graph-Fused and Multitask Lasso) folders.