normalize_to_Pair: For data with pairs, normalize them to the sample with flag...

In ecnuzdd/PhosMap: A Comprehensive R Package For Analyzing Quantitative Phosphoproteomics Data

For data with pairs, normalize them to the sample with flag eaqul to -1.

Description

For data with pairs, normalize them to the sample with flag eaqul to -1.

Usage

normalize_to_Pair(data_frame, experiment_design_file)

Arguments

data_frame	a data frame as input.
experiment_design_file	a data frame for design of experiment.

Value

A data frame after normalization.

Examples

## The process needs to load data from PhosMap datasets stored into FTP server and perform large computation.
## It may take a few minutes.
if(FALSE){
ftp_url <- "ftp://111.198.139.72:4000/pub/PhosMap_datasets/function_demo_data/normalize_to_Pair.RData"
load_data <- load_data_with_ftp(ftp_url, 'Rdata')
writeBin(load_data, "normalize_to_Pair.RData")
load("normalize_to_Pair.RData")

phospho_data_normalize_by_column <- normalize_to_Pair(
  phospho_data_normalized,
  pairing_phosphorylation_experiment_design_file
)
head(phospho_data_normalize_by_column)

}

ecnuzdd/PhosMap documentation built on Dec. 7, 2022, 4:09 a.m.