Visualisation {IntramiRExploreR} | R Documentation

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

### Description

Visualises the targetGene:miRNA network using Cytoscape and igraph .

### Usage

    Visualisation(miRNA, mRNA_type = c("GeneSymbol", "FBID", "CGID"),
      method = c("Pearson", "Distance", "Both"), platform = c("Affy1", "Affy2"),
      thresh = 50, visualisation = c("igraph", "Cytoscape", "Text", "console"),
      path = tempdir(), layout = c("kamadakawai", "reingold.tilford",
      "fruchterman.reingold", "interactive"))

### Arguments

`miRNA` | character. miRNA 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'.
`thresh` | integar. Threshold depicting number of rows to show.
`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

    miRNA='dme-miR-12'
    Visualisation(miRNA,mRNA_type=c('GeneSymbol'),method=c('Pearson'),
    platform=c('Affy1'),visualisation=c('igraph'),layout=c('kamadakawai'),
               path=tempdir())

[Package IntramiRExploreR version 1.8.0 Index]