dot-parCombinateAllAndSum: Multiprocessor Version For Full Combinatorial And Cumulative...

In wrTopDownFrag: Internal Fragment Identification from Top-Down Mass Spectrometry

Multiprocessor Version For Full Combinatorial And Cumulative Values

Description

This function combines all variants and sums them

Usage

.parCombinateAllAndSum(
  uniqCo,
  massModV,
  nProc = NULL,
  firstOfRepeated = NULL,
  parRegDefault = TRUE,
  silent = FALSE,
  debug = FALSE,
  callFrom = NULL
)

Arguments

uniqCo	(matrix) number of modifications to be considered for each peptide
massModV	(named numeric) mass modification values (names must match colnames of uniqCo)
nProc	(integer) number of processors to be used
firstOfRepeated	(character)
parRegDefault	(logical) - argument currently not in use
silent	(logical) suppress messages
debug	(logical) additional messages for debugging
callFrom	(character) allows easier tracking of messages produced

Details

This function requires the packages 'parallel' and 'BiocParallel' (from Bioconductor) Note : The function may work only on some Windows systems or may give warnings on Windows

Value

This functions returns a list with single and combined mass-modifications (PTMs) for each peptide

See Also

convToNum

Examples

uniqCo <- matrix(c(1,1,1,0,1,1), nrow=2, dimnames=list(c("PTI","KPE"),c("d","p","h"))  )
massModV <- c(d=-18.01056, p=79.96633, h=-18.01056)
chPa <- c(requireNamespace("parallel", quietly=TRUE), 
  requireNamespace("BiocParallel", quietly=TRUE), "windows" %in% .Platform$OS.type)
## Note : the function may work only on some windows systems
if(all(chPa)) if(parallel::detectCores() >1) {
  .parCombinateAllAndSum(uniqCo, massModV, nProc=2)}

wrTopDownFrag documentation built on June 8, 2025, 1:34 p.m.