GMSimpute (version 0.0.1.0)

missing.sim: Missing peaks generating procedure for simulation study

Description

missing.sim generates various types of missing peaks based on specified missing proportion.

Usage

missing.sim(complete.data, total.missing, random, pct.full,
  seednum = 365)

Arguments

complete.data

The full abundance matrix without missing value, with features in rows and samples in columns.

total.missing

A scalar or vector of proportions. It is the total percentage of missing peaks throughout the full matrix.

random

A scalar or vector of proportions. It is the percentage of random missing in all the missing peaks.

pct.full

A scalar for the percentage of alighned features (metabolites or peptides) without missing peaks.

seednum

The seed set for generating missing peaks index. Default seed is seednum=365.

Value

simulated.data

The list of all simulated scenarios

Labels

The description for each simulated scenario

Examples

# NOT RUN {
data('tcga.bc.full')
# tcga.bc.full contains mass specturm abundance of 100 metabolites for 30 breast cancer 
# tumor and normal tissue samples without missing values.


simulated.data=missing.sim(tcga.bc.full,total.missing=c(0.2,0.4),random=c(0.3,0.5,0.7),pct.full=0.4)
# Generate missing (NA) values in full abundance matrix tcga.bc.full permuting all scenarios

# }