RNAinteract (version 1.20.0)

estimateMainEffect: estimate main effect

Description

estimates the main effects in an additive model.

Usage

estimateMainEffect(sgi, use.query = NULL)

Arguments

sgi

An object of class RNAinteract.

use.query

A list of reagent identifiers as annotated in the RID field of the reagent list. For the estimation of the template main effects only these queries are used.

Value

An object of class RNAinteract.

Details

The main effect is the single RNAi knockdown effect. When use.query is not specified, the main effect is estimated by minimizing the L1 distance from the non-interacting model to the double RNAi measurements. The implemented non-interacting model is the additive model (sum of single main effects). If the screen does not contain a lot of query genes with no or ery small main effect, it is recommended to estimate the template main effects only by using selected query genes. This can be obtained by specifying use.query. To estimate main effects in a multiplicative model define Transformation="log2" when creating the RNAinteract object (See createRNAinteractFromFiles), which is already the default.

References

~put references to the literature/web site here ~

See Also

RNAinteract-package

Examples

data("sgi")
sgi <- estimateMainEffect(sgi)
getMain(sgi)