icnv_output_to_gb {iCNV} | R Documentation

## Convert icnv.output to input for Genome Browser.

### Description

We could add the output to custom tracks on Genome Browser. Remeber to choose human assembly matches your input data. We color coded the CNVs to make it as consistant as IGV. To show color, click 'User Track after submission', and edit config to 'visibility=2 itemRgb="On"'. Color see Github page for more example.

### Usage

    icnv_output_to_gb(chr = numeric(), icnv.output)

### Arguments

`chr` | CNV chromosome. Type integer.
`icnv.output` | output from output_list_function

### Value

matrix for Genome browser

### Examples

    icnv.output <- output_list(icnv_res=icnv_res0,sampleid=sampname_qc, CN=0, min_size=10000)
    gb_input <- icnv_output_to_gb(chr=22,icnv.output)
    write.table(gb_input,file='icnv_res_gb_chr22.tab',quote=FALSE,col.names=FALSE,row.names=FALSE)

[Package iCNV version 1.2.1 Index]