Metacell_maxquant: Sets the metacell dataframe

In prostarproteomics/DAPAR: Tools for the Differential Analysis of Proteins Abundance with R

Sets the metacell dataframe

Description

Initial conversion rules for maxquant |————|———————–|——–| | Quanti | Identification | Tag | |————|———————–|——–| | == 0 | whatever | 2.0 | | > 0 | 'By MS/MS' | 1.1 | | > 0 | 'By matching' | 1.2 | | > 0 | unknown col | 1.0 | |————|———————–|——–|

Usage

Metacell_maxquant(qdata, conds, df, level = NULL)

Arguments

qdata	An object of class MSnSet
conds	xxx
df	A list of integer xxxxxxx
level	xxx

Value

xxxxx

Author(s)

Samuel Wieczorek

Examples

file <- system.file("extdata", "Exp1_R25_pept.txt", package = "DAPARdata")
data <- read.table(file, header = TRUE, sep = "\t", stringsAsFactors = FALSE)
metadataFile <- system.file("extdata", "samples_Exp1_R25.txt",
    package = "DAPARdata"
)
metadata <- read.table(metadataFile,
    header = TRUE, sep = "\t", as.is = TRUE,
    stringsAsFactors = FALSE
)
conds <- metadata$Condition
qdata <- data[seq_len(10), seq.int(from = 56, to = 61)]
df <- data[seq_len(10), seq.int(from = 43, to = 48)]
df2 <- Metacell_maxquant(qdata, conds, df, level = "peptide")

prostarproteomics/DAPAR documentation built on Nov. 26, 2024, 6:32 p.m.