wrMisc: filtSizeUniq – R documentation

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filtSizeUniq

Filter for unique elements

Description

This function aims to identify and remove duplicated elements in a list and maintain the list-structure in the output. filtSizeUniq filters 'lst' (list of character-vectors or character-vector) for elements being unique (to 'ref' or if NULL to all 'lst') and of character length. In addition, the min- and max- character length may be filtered, too. Eg, in proteomics this helps removing peptide sequences which would not be measured/detected any way.

Usage

filtSizeUniq(
  lst,
  ref = NULL,
  minSize = 6,
  maxSize = 36,
  filtUnique = TRUE,
  byProt = TRUE,
  inclEmpty = TRUE,
  silent = FALSE,
  callFrom = NULL
)

Arguments

`lst`	list of character-vectors or character-vector
`ref`	(character) optional alternative 'reference', if not `NULL` used in addition to 'lst' for considering elements of 'lst' as unique
`minSize`	(integer) minimum number of characters, if `NULL` set to 0
`maxSize`	(integer) maximum number of characters
`filtUnique`	(logical) if `TRUE` return unique-only character-strings
`byProt`	(logical) if `TRUE` organize output as list (by names of input, eg protein-names) - if 'lst' was named list
`inclEmpty`	(logical) optional including empty list-elements when all elements have been filtered away - if 'lst' was named list
`silent`	(logical) suppress messages
`callFrom`	(character) allow easier tracking of message(s) produced

Value

list of filtered input

Examples

filtSizeUniq(list(A="a",B=c("b","bb","c"),D=c("dd","d","ddd","c")),filtUn=TRUE,minSi=NULL)
# input: c and dd are repeated
filtSizeUniq(list(A="a",B=c("b","bb","c"),D=c("dd","d","ddd","c")),ref=c(letters[c(1:26,1:3)],
  "dd","dd","bb","ddd"),filtUn=TRUE,minSi=NULL)  # a,b,c,dd repeated

wrMisc

Analyze Experimental High-Throughput (Omics) Data

v1.5.4

GPL-3

Authors

Wolfgang Raffelsberger [aut, cre]

Initial release