sc3_run_svm: Run the hybrid 'SVM' approach.

In hemberg-lab/SC3: Single-Cell Consensus Clustering

Description

This method parallelize SVM prediction for each k (the number of clusters). Namely, for each k, support_vector_machines function is utilized to predict the labels of study cells. Training cells are selected using svm_train_inds item of the sc3 slot of the metadata(object).

Usage

sc3_run_svm.SingleCellExperiment(object, ks)

## S4 method for signature 'SingleCellExperiment'
sc3_run_svm(object, ks = NULL)

Arguments

object	an object of SingleCellExperiment class
ks	a continuous range of integers - the number of clusters k to be used for SC3 clustering. Can also be a single integer.

Details

Results are written to the sc3_k_clusters columns to the colData slot of the input object, where k is the number of clusters.

Value

an object of SingleCellExperiment class

hemberg-lab/SC3 documentation built on Dec. 18, 2019, 10:02 p.m.