findMarkerGenes: Identification of marker-genes via pairwise DE analysis

Description Usage Arguments

View source: R/findMarkerGenes.R

Description

Test for DE expression between all pairs of clusters. For each cluster, cluster-specific genes can then be identified by filtering for genes that are DE against most other clusters.

Usage

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findMarkerGenes(x, cluster_id, mc.cores = 1, assay = "RNA",
  block = NULL, logfc.threshold = 1, test.use = "wilcox",
  min.pct = 0.25)

Arguments

x

a SingleCellExperiment.

cluster_id

a character string specifying the clustering to use. Must match a [email protected] column.

mc.cores

passed to mclapply.

assay, block, logfc.threshold, test.use, min.pct

passed to FindMarkers.


HelenaLC/ddSingleCell documentation built on Dec. 7, 2018, 7:54 a.m.