Calculate alignment for each cluster
Returns alignment for each cluster in analysiss (see documentation for calcAlignment).
calcAlignmentPerCluster(object, rand.seed = 1, k = NULL, by.dataset = FALSE)
object |
|
rand.seed |
Random seed for reproducibility (default 1). |
k |
Number of nearest neighbors in calculating alignment (see calcAlignment for default). Can pass in single value or vector with same length as number of clusters. |
by.dataset |
Return alignment calculated for each dataset in cluster (default FALSE). |
Vector of alignment statistics (with names of clusters).
## Not run: # ligerex (liger object), factorization complete ligerex <- quantile_norm(ligerex) # get alignment for each cluster alignment_per_cluster <- calcAlignmentPerCluster(ligerex) ## End(Not run)
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