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 = NULL,
      top = 10,
      bottom = 10,
      cutoff = NULL,
      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` | Numeric.
`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

    file1 = file.path(system.file("extdata", package = "MAGeCKFlute"),
    "testdata/rra.gene_summary.txt")
    gdata = ReadRRA(file1)
    rankdata = gdata$Score
    names(rankdata) = gdata$id
    RankView(rankdata)

[Package MAGeCKFlute version 1.8.0 Index]