marker_gene_selection {UNDO} | R Documentation

## Select marker genes in two sources

### Description

Select the marker genes in tumor and stroma in an unsupervised way

### Usage

    marker_gene_selection(X, lowper, highper, epsilon1, epsilon2)

### Arguments

`X` | gene expression data
`lowper` | The percentage of genes the user wants to remove with lowest norm. The range should be between 0 and 1.
`highper` | The percentage of genes the user wants to remove with highest norm.The range should be between 0 and 1.
`epsilon1` | Influence the number of marker genes. With increasing of epsilon1, the number marker genes in source 1 will increase. The value should be positive.
`epsilon2` | Influence the number of marker genes. With increasing of epsilon1, the number marker genes in source 2 will increase. The value should be positive.

### Value

`a1` | The slope of marker genes in source 1
`a2` | The slope of marker genes in source 2
`MG1` | The gene list of marker genes in source 1
`MG2` | The gene list of marker genes in source 2
`dimenMatrix` | dimension reduction matrix

### Author(s)

Niya Wang (wangny@vt.edu)

### Examples

    X <- matrix(runif(20000),10000,2)
    MG_set <- marker_gene_selection(X, 0.4, 0.1, 0.1, 0.1)

[Package UNDO version 1.32.0 Index]