RTN.data {RTN} | R Documentation

## A pre-processed dataset for the RTN package.

### Description

A minimum dataset used to demonstrate RTN main functions.

### Usage

    data(dt4rtn)

### Format

`dt4rtn` List containing 6 R objects: 'gexp', 'gexpIDs', 'pheno', 'phenoIDs', 'hits' and 'tfs'.

### Details

The dataset consists of 6 R objects used in the RTN vignettes. It should be regarded as a toy example for demonstration purposes only, despite being extracted, pre-processed and size-reduced from Fletcher et al. (2013) and Curtis et al. (2012).

dt4rtn$gexp

  a named gene expression matrix with 250 samples (a subset from the Fletcher2013b package for demonstration purposes only).

dt4rtn$gexpIDs

  a data.frame of characters with Probe-to-ENTREZ annotation.

dt4rtn$pheno

  a named numeric vector with differential gene expression data.

dt4rtn$phenoIDs

  a data.frame of characters with probe ids matching a secundary annotation source (e.g. Probe-to-ENTREZ).

dt4rtn$hits

  a character vector with genes differentially expressed.

dt4rtn$tfs

  a named vector with transcriptions factors.

### References

Fletcher M.N.C. et al., Master regulators of FGFR2 signalling and breast cancer risk. Nature Communications, 4:2464, 2013.

Curtis C. et al., The genomic and transcriptomic architecture of 2,000 breast tumours reveals novel subgroups. Nature 486, 7403. 2012.

### Examples

        data(dt4rtn)

[Package RTN version 2.6.3 Index]