Inferring the Topology of Omics Data
Performing a single bootstrap
Compute configuration matrices
Computes a configuration matrix
Inner product similarity.
Intersect samples between datasets.
Jaccard similarity.
Performing a permutation
Process a custom configuration matrix.
Bootstrapping procedure
Permutations for significance testing
Computes the RV coefficient
Determining a confidence interval for the (partial) RV coefficient
A correlation matrix of RV coefficients
Wrapper function to determine significance in the PC algorithm
Determining a (partial) RV coefficient
Determining a p-value the (partial) RV coefficient
Infers a topology of relationships between different datasets, such as multi-omics and phenotypic data recorded on the same samples. We based this methodology on the RV coefficient (Robert & Escoufier, 1976, <doi:10.2307/2347233>), a measure of matrix correlation, which we have extended for partial matrix correlations and binary data (Aben et al., 2018, <doi:10.1101/293993>).