getCustomGenes {attract} | R Documentation

## Function removes genes from the custom pathway that demonstrate little variation across the cell types.

### Description

Function removes genes from the custom pathway that demonstrate little variation across the cell types.

### Usage

    getCustomGenes(vec.geneid, removeGenes = NULL)

### Arguments

`vec.geneid` | a `vector` of character strings denoting a custom gene set.
`removeGenes` | `vector` of gene names that specify those genes who demonstrate little variability across the different cellt ypes and thus should be removed from downstream analysis.

### Details

This function is also called internally by `findSynexprs`.

### Value

A `vector` of gene names that have variable expression across the different cell types.

### Author(s)

Jessica Mar

### References

Mar, J., C. Wells, and J. Quackenbush, Defining an Informativeness Metric for Clustering Gene Expression Data. to appear, 2010.

### Examples

    ## Not run:

    data(subset.loring.eset)
    remove.these.genes <- removeFlatGenes(subset.loring.eset, "celltype", contrasts=NULL, limma.cutoff=0.05)
    vec.geneid <- c("GI_17999531-S","GI_17978503-A")
    customGenes <- getCustomGenes(vec.geneid, removeGenes=NULL)

    ## End(Not run)

[Package attract version 1.42.0 Index]