GetIndices_MetacellFiltering: Delete the lines in the matrix of intensities and the...

View source: R/missingValuesFilter.R

GetIndices_MetacellFilteringR Documentation

Delete the lines in the matrix of intensities and the metadata table given their indice.

Description

Delete the lines in the matrix of intensities and the metadata table given their indice.

Usage

GetIndices_MetacellFiltering(
  obj,
  level,
  pattern = NULL,
  type = NULL,
  percent,
  op,
  th
)

Arguments

obj

An object of class MSnSet containing quantitative data.

level

A vector of integers which are the indices of lines to delete.

pattern

A string to be included in the MSnSet object for log.

type

xxx

percent

xxx

op

xxx

th

xxx

Value

An instance of class MSnSet that have been filtered.

Author(s)

Samuel Wieczorek

Examples

data(Exp1_R25_pept, package="DAPARdata")
obj <- Exp1_R25_pept[seq_len(10)]
level <- GetTypeofData(obj)
pattern <- c("Missing", "Missing POV")
type <- "AtLeastOneCond"
percent <- FALSE
op <- ">="
th <- 1
indices <- GetIndices_MetacellFiltering(obj, level, pattern, type, percent, op, th)



pattern <- "Quantified"
type <- "AtLeastOneCond"
percent <- FALSE
op <- ">="
th <- 4
indices2.1 <- GetIndices_MetacellFiltering(obj, level, pattern, type, percent, op, th)

pattern <- "Quant. by direct id"
type <- "AtLeastOneCond"
percent <- FALSE
op <- ">="
th <- 3
indices2.2 <- GetIndices_MetacellFiltering(obj, level, pattern, type, percent, op, th)

prostarproteomics/DAPAR documentation built on March 28, 2024, 4:44 a.m.