checkGrpOrderSEM: Check order of multiple groups including non-overlapping...

In wrMisc: Analyze Experimental High-Throughput (Omics) Data

Check order of multiple groups including non-overlapping SEM-margins

Description

checkGrpOrderSEM tests each line of 'x' if expected order of (replicate-) groups (defined in 'grp') appears intact, while inluding SEM of groups (replicates) via a proportional weight 'sdFact' as (avGr1-gr1SEM) < (avGr1+gr1SEM) < (avGr2-gr2SEM) < (avGr2+gr2SEM). Used for comparing groups of measures with expected profile (by matching expected order) to check if data in 'x' represting groups ('grp') as lines follow. Groups of size=1: The sd (and SEM) can't be estimated directly without any replicates, however, an estimate can be given by shrinking if 'shrink1sampSd'=TRUE under the hypothesis that the overall mechanisms determining the variances is constant across all samples.

Usage

checkGrpOrderSEM(
  x,
  grp,
  sdFact = 1,
  revRank = TRUE,
  shrink1sampSd = TRUE,
  silent = FALSE,
  callFrom = NULL
)

Arguments

x	matrix or data.frame
grp	(factor) to organize replicate columns of (x)
sdFact	(numeric) is proportional factor how many units of SEM will be used for defining lower & upper bounds of each group
revRank	(logical) optionally revert ranks
shrink1sampSd	(logical)
silent	(logical) suppress messages
callFrom	(character) allow easier tracking of message(s) produced

Value

logical vector if order correct (as expected based on ranks)

See Also

takes only 10

Examples

mat1 <- matrix(rep(11:24,3)[1:40],byrow=TRUE,ncol=8)
checkGrpOrderSEM(mat1,grp=gl(3,3)[-1])

wrMisc documentation built on Nov. 17, 2023, 5:09 p.m.