RunHarmonyLouvain {ProFAST}

Embedding alignment and clustering based on the embeddings from FAST

Description

Embedding alignment and clustering using the Harmony and Louvain based on the ebmeddings from FAST as well as determining the number of clusters.

Usage

RunHarmonyLouvain(PRECASTObj, resolution = 0.5)

Arguments

PRECASTObj

a PRECASTObj object created by CreatePRECASTObject.

resolution

an optional real, the value of the resolution parameter, use a value above (below) 1.0 if you want to obtain a larger (smaller) number of communities.

Value

Return a revised PRECASTObj object with slot PRECASTObj@resList added by a Harmony compoonent (including the aligned embeddings and embeddings of batch effects) and a Louvain component (including the clusters).