lexi: LEXI: lncRNA expression imputation

In aritronath/LEXI: LEXI: lncRNA expression imputation

Description

Function to impute lncRNA expression profile from protein coding expression dataset

Usage

lexi(train_pcg, train_lnc, my_pcg, gene_index, num = 100)

Arguments

train_pcg	training protein coding dataset. a numeric matrix with with row names indicating samples, and column names indicating protein coding gene IDs.
train_lnc	training lncRNA expression dataset. a numeric matrix with row names indicating samples, and column names indicating lncRNA IDs
my_pcg	test protein coding expression dataset. a numberic matrix with row names indicating samples, and column names indicating protein coding gene IDs.
gene_index	either gene name (character) or index (column number) of lncRNA to be imputed.
num	number of informative protein coding genes to be used in constructing imputation model. Default is 100 genes.

Value

a numeric vector containing imputed & standardized expression levels of the lncRNA

Examples

lexi(train_pcg, train_lnc, my_pcg, gene_index="ENSG00000228630", num=100)
lexi(train_pcg, train_lnc, my_pcg, gene_index=25, num=100)

aritronath/LEXI documentation built on May 10, 2019, 1:27 p.m.