Consensus {FEAST} | R Documentation |
Consensus Clustering
Consensus(Y, num_pcs = 10, top_pctg = 0.33, k = 2, thred = 0.9, nProc = 1)
Y |
A expression matrix. It is recommended to use the raw count matrix. Users can input normalized matrix directly. |
num_pcs |
The number of top pcs that will be investigated on through consensus clustering. |
top_pctg |
Top percentage of features for dimension reduction |
k |
The number of input clusters (best guess). |
thred |
For the final GMM clustering, the probability of a cell belonging to a certain cluster. |
nProc |
number of cores for BiocParallel enviroment. |
the clustering labels and the featured genes.
data(Yan) set.seed(123) rixs = sample(nrow(Y), 500) cixs = sample(ncol(Y), 40) Y = Y[rixs, cixs] con = Consensus(Y, k=5)