constructDesignMatrix {cancerGI}

Generate a design matrix from raw RNAi data.

Description

This function takes the raw RNAi data as input and generates a design matrix for regression. Specifically written for the format of the data set RNAi, which contains four batches. This R function will use batch3 as the baseline.

Usage

constructDesignMatrix(data, covariates)

Arguments

data

Matrix of RNAi measurements; includes columns batch, query_gene and template_gene.

covariates

Vector of strings; each string is the name of a covariate.

Value

A design matrix. The number of rows is the same as that of the data set RNAi, and the number of columns is the same as the length of covariates.

Examples

## See example in documentation for the data set RNAi.