--- a
+++ b/man/getCOCA.Rd
@@ -0,0 +1,45 @@
+% Generated by roxygen2: do not edit by hand
+% Please edit documentation in R/getCOCA.R
+\name{getCOCA}
+\alias{getCOCA}
+\title{Get subtypes from COCA}
+\usage{
+getCOCA(
+  data = NULL,
+  N.clust = NULL,
+  type = rep("gaussian", length(data)),
+  methods = "hclust",
+  distances = "euclidean"
+)
+}
+\arguments{
+\item{data}{List of matrices.}
+
+\item{N.clust}{Number of clusters.}
+
+\item{type}{Data type corresponding to the list of matrics, which can be gaussian, binomial or possion.}
+
+\item{methods}{A string vector storing the names of clustering methods to be used to cluster the observations in each subdataset.}
+
+\item{distances}{A string vector storing the name of distances to be used in the clustering step for each subdataset.}
+}
+\value{
+A list with the following components:
+
+        \code{fit}        an object returned by \link[coca]{coca}.
+
+        \code{clust.res}  a data.frame storing sample ID and corresponding clusters.
+
+        \code{clust.dend} a dendrogram of sample clustering.
+
+        \code{mo.method}  a string value indicating the method used for multi-omics integrative clustering.
+}
+\description{
+This function wraps the COCA (Cluster-of-Clusters Analysis) algorithm and provides standard output for `getMoHeatmap()` and `getConsensusMOIC()`.
+}
+\examples{
+# There is no example and please refer to vignette.
+}
+\references{
+Hoadley KA, Yau C, Wolf DM, et al (2014). Multiplatform analysis of 12 cancer types reveals molecular classification within and across tissues of origin. Cell, 158(4):929-944.
+}