Gene_Visualisation {IntramiRExploreR} | R Documentation

## Visualises the targetGene:miRNA network using Cytoscape and igraph .

### Description

Visualises the targetGene:miRNA network using Cytoscape and igraph .

### Usage

    Gene_Visualisation(mRNA, mRNA_type = c("GeneSymbol", "FBGN", "CGID"),
      method = c("Pearson", "Distance", "Both"), platform = c("Affy1", "Affy2"),
      visualisation = c("igraph", "Cytoscape", "text", "console"),
      path = tempdir(), layout = c("kamadakawai", "reingold.tilford",
      "fruchterman.reingold", "interactive"))

### Arguments

`mRNA` | character. gene Identifier.
`mRNA_type` | character. mRNA id type. The choices are 'GeneSymbol','FBID' and 'CGID'.
`method` | character. Statistical Methods. Choices are 'Pearson','Distance','Both'
`platform` | character. Affymetrix Platforms. Choices are 'Affy1','Affy2'.
`visualisation` | character.Visualisation type. Choices are 'igraph','Cytoscape','text'and "console"
`path` | character. Path where data.frame is saved when visualisation is text. Default is tempdir().
`layout` | character. Network choices. Choices are 'kamadakawai','reingold.tilford','fruchterman.reingold' and 'interactive'.

### Value

Depending upon the ouput choice network image or dataframe containg miRNAs that target the query gene are ouput.

### Examples

    mRNA='Syb'
    Gene_Visualisation(mRNA,mRNA_type=c('GeneSymbol'),method=c('Pearson'),
                      platform=c('Affy1'), visualisation = "console")

[Package IntramiRExploreR version 1.8.0 Index]