dri.impute {DRI}R Documentation

Impute missing values for gene expression data

Description

Missing gene expression measurements are imputed by the K-nearest neighbors method

Usage

dri.impute(d)

Arguments

d data matrix whose missing values will be imputed

Details

The K-nearest neighbors method is employed (K=10) to impute missing gene expression values. For any row with more than 50

Uses the impute.knn function of the impute package.

Value

~Describe the value returned If it is a LIST, use

data the new imputed data matrix

Author(s)

Keyan Salari, Robert Tibshirani, and Jonathan R. Pollack

References

Salari, K., Tibshirani, R., and Pollack, J.R. (2009) DR-Integrator: a new analytic tool for integrating DNA copy number and gene expression data. http://pollacklab.stanford.edu/

Olga Troyanskaya, Michael Cantor, Gavin Sherlock, Pat Brown, Trevor Hastie, Robert Tibshirani, David Botstein and Russ B. Altman, Missing value estimation methods for DNA microarrays BIOINFORMATICS Vol. 17 no. 6, 2001 Pages 520-525.

See Also

drcorrelate,drcorrelate.null,drsam,drsam.null, dri.fdrCutoff,dri.sig_genes,dri.heatmap

Examples

require(impute)
data(mySampleData)
attach(mySampleData)

# DNA data should contain no missing values - pre-mooth beforehand
# Impute missing values for gene expression data
RNA.data <- dri.impute(RNA.data)

[Package DRI version 1.0 Index]