RankView {MAGeCKFlute} | R Documentation

## View the rank of gene points

### Description

Rank all genes according to beta score deviation, and label top and bottom meaningful genes. Some other interested genes can be labeled too.

### Usage

    RankView(rankdata, genelist = NA, top = 20, bottom = 20,
      cutoff = c(-sd(rankdata), sd(rankdata)), main = NULL,
      filename = NULL, width = 5, height = 4, ...)

### Arguments

`rankdata` | Numeric vector, with gene as names.
`genelist` | Character vector, specifying genes to be labeled in figure.
`top` | Integer, specifying number of top genes to be labeled.
`bottom` | Integer, specifying number of bottom genes to be labeled.
`cutoff` | A two-length numeric vector, in which first value is bottom cutoff, and second value is top cutoff.
`main` | As in 'plot'.
`filename` | Figure file name to create on disk. Default filename="NULL", which means no output.
`width` | As in ggsave.
`height` | As in ggsave.
`...` | Other available parameters in function 'ggsave'.

### Value

An object created by `ggplot`, which can be assigned and further customized.

### Author(s)

Wubing Zhang

### Examples

    data(rra.gene_summary)
    rra = ReadRRA(rra.gene_summary, organism = "hsa")
    rankdata = rra$LFC
    names(rankdata) = rra$Official
    RankView(rankdata)

[Package MAGeCKFlute version 1.2.3 Index]