sortRows: sortRows

In SEtools: SEtools: tools for working with SummarizedExperiment

Description

sortRows

Usage

sortRows(
  x,
  z = FALSE,
  toporder = NULL,
  na.rm = FALSE,
  method = "MDS_angle",
  toporder.meth = "before"
)

Arguments

x	A numeric matrix or data.frame.
z	Whether to scale rows for the purpose of calculating order (default FALSE).
toporder	Optional verctor of categories (length=nrow(x)) on which to supra-order when sorting rows.
na.rm	Wheter to remove missing values and invariant rows (default FALSE).
method	Seriation method; 'MDS_angle' (default) or 'R2E' recommended.
toporder.meth	Whether to perform higher-order sorting 'before' (default) or 'after' the lower-order sorting.

Value

A reordered matrix or data.frame.

Examples

# random data
m <- matrix( round(rnorm(100,mean=10, sd=2)), nrow=10,
             dimnames=list(LETTERS[1:10], letters[11:20]) )
m
sortRows(m)

SEtools documentation built on Nov. 8, 2020, 8:21 p.m.