channel.delete {LipidomicsR}

Delete repeated channel data generated by LC-MS

Description

channel.delete select one of the channel with largest mean value out of multiple replicated LC-MS cahnnels, and it returns an edited data frame with no repeated channel and simplified row name.

Usage

channel.delete(
  data,
  delete.pattern = c("_\\d", "(\\+)AcO", "_n", "\\(\\d+\\)"),
  group = NA,
  remove = NA
)

Arguments

data

Primary lipidomic data in .csv format.

delete.pattern

Pattern of characters that needs to be removed.

group

Vector. The group information, recommended to be generated with groupXpert()

remove

Character. The group that needed to be removed.

Value

Edited data with no repeat channels and simplified row name.

Examples

x1 <- c(1,1,1,1)
x2 <- c(1.1,1.2,1.3,1.4)
x3 <- c(1,1,1,1)
x4 <- c(2,2,2,2)
rowNames <- c('PC(14:0/14:1)+AcO_1','PC(14:0/14:1)+AcO_2','PC(16:0/16:1)_1','PC(16:0/16:1)_2')
ExampleData <- data.frame(x1,x2,x3,x4, row.names =rowNames)
replicate.delete(ExampleData,delete.pattern= c('_\\d','(\\+)AcO'))