Evaluates how well each latent variable in a CLAMP model captures
held-out pathway annotations, using cross-validation over the prior
matrix. For each latent variable and associated pathway, held-out genes
are selected and the AUC is computed using their scores in
clampRes$Z.
Usage
crossVal(clampRes, priorMat, priorMatcv)
Arguments
- clampRes
A list containing U (loadings) and Z
(scores) from a CLAMP model.
- priorMat
A binary matrix (genes x pathways) indicating original
pathway annotations.
- priorMatcv
A version of priorMat used to mask held-out
annotations for cross-validation.
Value
A list with:
UaucMatrix of AUC values (pathways x LVs)
UpvalMatrix of -log10(p) values (pathways x LVs)
summaryData frame with pathway, LV index, AUC, p-value,
and FDR
