wrProteo: corColumnOrder – R documentation

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corColumnOrder

Order columns in list of matrixes (or matrix)

Description

This function orders columns in list of matrixes (or matrix) according to argument sampNames. This function can be used to adjut/correct the order of samples after reading data using readMaxQuantFile(), readPDExport() etc. The input may also be MArrayLM-type object from package limma or from moderTestXgrp or moderTest2grp.

Usage

corColumnOrder(
  dat,
  sampNames,
  useListElem = c("quant", "raw"),
  silent = FALSE,
  callFrom = NULL
)

Arguments

`dat`	(matrix, list or MArrayLM-object from limma) main input of which columns should get re-ordered, may be output from `moderTestXgrp` or `moderTest2grp`.
`sampNames`	(character) column-names in desired order for output
`useListElem`	(character) in case `dat` is list, all list-elements who's columns should get (re-)ordered
`silent`	(logical) suppress messages
`callFrom`	(character) allow easier tracking of message(s) produced

Value

object of same class as input dat

Examples

grp <- factor(rep(LETTERS[c(3,1,4)], c(2,3,3)))
dat1 <- matrix(1:15, ncol=5, dimnames=list(NULL,c("D","A","C","E","B")))
corColumnOrder(dat1,sampNames=LETTERS[1:5])  

dat1 <- list(quant=dat1,raw=dat1)
  dat1
corColumnOrder(dat1,sampNames=LETTERS[1:5])

wrProteo

Proteomics Data Analysis Functions

v1.4.1

GPL-3

Authors

Wolfgang Raffelsberger [aut, cre]

Initial release