| bootstrap.config.matrices | Performing a single bootstrap | 
| compute.config.matrices | Compute configuration matrices | 
| compute.config.matrix | Computes a configuration matrix | 
| inner.product | Inner product similarity. | 
| intersect.samples | Intersect samples between datasets. | 
| jaccard | Jaccard similarity. | 
| permute.config.matrices | Performing a permutation | 
| process.custom.config.matrix | Process a custom configuration matrix. | 
| run.bootstraps | Bootstrapping procedure | 
| run.permutations | Permutations for significance testing | 
| rv.coef | Computes the RV coefficient | 
| rv.conf.interval | Determining a confidence interval for the (partial) RV coefficient | 
| rv.cor.matrix | A correlation matrix of RV coefficients | 
| rv.link.significance | Wrapper function to determine significance in the PC algorithm | 
| rv.pcor | Determining a (partial) RV coefficient | 
| rv.pval | Determining a p-value the (partial) RV coefficient |