ssc.assay.hclust: sort by hierarchical clustering

In Japrin/sscVis: simpler single cell RNAseq data Visualization

sort by hierarchical clustering

Description

sort by hierarchical clustering

Usage

ssc.assay.hclust(
  obj,
  assay.name = "exprs",
  order.col = FALSE,
  order.row = FALSE,
  clustering.distance = "spearman",
  clustering.method = "complete",
  k.row = 1,
  k.col = 1
)

Arguments

obj	object of singleCellExperiment class
assay.name	character; which assay (default: "exprs")
order.col	logical; wheter order columns (default: FALSE)
order.row	logical; wheter order row (default: FALSE)
clustering.distance	character; one of spearmn, pearson and euclidean (default: "spearman")
clustering.method	character; method for hclust (default: "complete")
k.row	integer; number of clusters in the rows (default: 1)
k.col	integer; number of clusters in the columns (default: 1)

Details

order genes or cells according the assay, using hclust.

Japrin/sscVis documentation built on March 5, 2025, 10:23 a.m.