annotate.gs {mogsa} | R Documentation

## Summary annotation information of a gene set

### Description

Retrive variables/features (genes) mapped to the annotated data sets in a gene set. Also returns the the information about presence and absence of a feature for a specific data set.

### Usage

      annotate.gs(mgsa, gs)

### Arguments

`mgsa` | An object of class `mgsa-class` or `moa.sup-class`.
`gs` | The name of a geneset

### Value

This function returns a data.frame. The first column shows the name of features. The last column is for the count of how many data sets has the corresponding features. Columns in the middle contains logical value indicating whether a feature is presented in a particular data set.

### Author(s)

Chen Meng

### See Also

see `GIS`

### Examples

      # library(mogsa)
      # loading gene expression data and supplementary data
      data(NCI60_4array_supdata)
      data(NCI60_4arrays)
      mgsa <- mogsa(x = NCI60_4arrays, sup=NCI60_4array_supdata, nf=9,
                    proc.row = "center_ssq1", w.data = "inertia", statis = TRUE)
      allgs <- colnames(NCI60_4array_supdata[[1]])
      annotate.gs(mgsa, allgs[1])

[Package mogsa version 1.14.0 Index]