imp4p: miss_total_process – R documentation

Become an expert in R — Interactive courses, Cheat Sheets, certificates and more!

miss_total_process

Estimating the missing data mechanism in a sample.

Description

This function allows estimating the missing data mechanism, i.e. the probability to be missing in function of the intensity level, from an estimation of a mixture model of MNAR and MCAR values (see estim.mix function).

Usage

miss.total.process(abs,pi_na,F_na,F_tot)

Arguments

`abs`	The interval on which is estimated the missing data mechanism.
`pi_na`	The proportion of missing values.
`F_na`	An estimation of the cumulative distribution function of the missing values on the interval `abs`.
`F_tot`	An estimation of the cumulative distribution function of the complete values on the interval `abs`.

Value

A list composed of:

`abs`	The interval on which is estimated the missing data mechanism.
`p`	The estimated probability to be missing in function of the intensity level.

Author(s)

Quentin Giai Gianetto <quentin2g@yahoo.fr>

Examples

#Simulating data
res.sim=sim.data(nb.pept=2000,nb.miss=600);

#Imputation of missing values with the slsa algorithm
dat.slsa=impute.slsa(tab=res.sim$dat.obs,conditions=res.sim$condition,repbio=res.sim$repbio);

#Estimation of the mixture model
res=estim.mix(tab=res.sim$dat.obs, tab.imp=dat.slsa, conditions=res.sim$condition);

#Estimating the missing mechanism in the first replicate
mtp=miss.total.process(res$abs.mod,res$pi.na[1],res$F.na[,1],res$F.tot[,1])
plot(mtp$abs,mtp$p,ty="l",xlab="Intensity values",ylab="Estimated probability to be missing")

imp4p

Imputation for Proteomics

v1.1

GPL-3

Authors

Quentin Giai Gianetto

Initial release