matchSampToPairw: Match names to concatenated pairs of names

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

Match names to concatenated pairs of names

Description

The column-names of multiple pairwise testing contain the names of the initial groups/conditions tested, plus there is a separator (eg '-' in moderTestXgrp). Thus function allows to map back which groups/conditions were used by returning the index of the respective groups used in pair-wise sets.

Usage

matchSampToPairw(
  grpNa,
  pairwNa,
  sep = NULL,
  silent = FALSE,
  debug = FALSE,
  callFrom = NULL
)

Arguments

grpNa	(character) the names of the groups of replicates (ie conditions) used to test
pairwNa	(character) the names of pairwise-testing (ie 'concatenated' sampNa
sep	(character) if not NULL the characters given will be used via stringsplit
silent	(logical) suppress messages
debug	(logical) additional messages for debugging
callFrom	(character) allow easier tracking of messages produced

Details

There are two modes of operation : 1) Argument sep is set to NULL : The names of initial groups/conditions (grpNa) will be tested for exact pattern matching either at beginning or at end of pair-wise names (pairwNa). This approach has the advantage that it does not need to be known what character(s) were used as separator (or they may change), but the disadvantage that in case the perfect grpNa was not given, the longest best match of grpNa will be returned.

2) The separator sep is given and exact matches at both sides will be searched. However, if the character(s) from sep do appear inside grpNa no matches will be found.

If some grpNa are not found in pairwNa this will be marked as NA.

Value

matrix of 2 columns with inidices of sampNa with pairwNa as rows

See Also

(for running multiple pair-wise test) moderTestXgrp, grep, strsplit

Examples

pairwNa1 <- c("abc-efg","abc-hij","efg-hij")
grpNa1 <- c("hij","abc","abcc","efg","klm")
matchSampToPairw(grpNa1, pairwNa1) 

pairwNa2 <- c("abc-efg","abcc-hij","abc-hij","abc-hijj","zz-zz","efg-hij")
matchSampToPairw(grpNa1, pairwNa2) 

wrMisc documentation built on Sept. 11, 2024, 6:10 p.m.