ValidateSpecificClusters: Specific Cluster Validation

In nukappa/seurat_v2: Seurat : R toolkit for single cell genomics

Description

Methods for validating the legitimacy of two specific clusters using classification. SVMs are used as the basis for the classification. Merging is done based on the connectivity from an SNN graph.

Usage

ValidateSpecificClusters(object, cluster1 = NULL, cluster2 = 1,
  pc.use = 2, top.genes = 30, acc.cutoff = 0.9)

Arguments

object	Seurat object
cluster1	First cluster to check classification
cluster2	Second cluster to check with classification
pc.use	Which PCs to use for model construction
top.genes	Use the top X genes for model construction
acc.cutoff	Accuracy cutoff for classifier

Value

Returns a Seurat object, object@ident has been updated with new cluster info

nukappa/seurat_v2 documentation built on May 24, 2019, 9:57 a.m.