hclust_in_grp: Hierarchical Clustering in each group

In jdreyf/jdcbioinfo: Joslin Diabetes Center bioinformatics utilities

Hierarchical Clustering in each group

Description

Hierarchical cluster analysis in each group.

Usage

hclust_in_grp(
  object,
  grp,
  sc = c("ctr", "z", "none"),
  clip = NA,
  dist.method = "euclidean",
  hc.method = "ward.D2"
)

Arguments

object	Matrix-like object with features (e.g. genes) as rows and samples as columns.
grp	Vector of sample groups. These must be valid variable names in R and the same length as ncol(object).
sc	Row scaling. Should rows be centered ('ctr'), z-scored ('z'), or neither ('none').
clip	Values with magnitude > clip are reset to value clip. If given, must be > 0.
dist.method	The distance measure to be used.
hc.method	The agglomeration method to be used.

Value

Vector of the labels.

jdreyf/jdcbioinfo documentation built on Sept. 18, 2024, 5:32 p.m.