Table 4.
R packages for integrative data analysis
| R/bioconductor package name | Description | Repository |
|---|---|---|
| PMA [97] | Penalized multivariate analysis (sparse CCA, PCA) | CRAN |
| mixOmics [98] | rCCA, sPLS | CRAN |
| sPLS-DA | ||
| rGCCA | ||
| made4 [87] | Coinertia analysis | Bioconductor |
| MCIA [88] | Multi-CIA | Bioconductor |
| RGCCA [89] | rGCCA, sparse GCCA for multi-block data analysis | CRAN |
| CNAmet [93] | Signal-to-noise ratio statistic, permutation test | csbi.ltdk.helsinki.fi/CNAmet/ |
| Rtopper [94] | Gene set enrichment | Bioconductor |
| iClusterPlus [95] | Joint latent variable regression model | Bioconductor |
| STATegra (www.stategra.eu) | PCA, clustering | Bioconductor |