shinyPathview {GDCRNATools} | R Documentation

## Shiny pathview

### Description

A simple shiny app to show pathways genetrated by pathview package on local web browser

### Usage

    shinyPathview(gene, pathways, directory = ".")

### Arguments

`gene` | a vector of numeric values (eg. fold change on log2 scale) with names are Ensembl gene ids
`pathways` | a vector of KEGG pathway ids
`directory` | the folder to save pathway figures. Default is the working directory

### Value

a local webpage for visualization of KEGG maps

### Author(s)

Ruidong Li and Han Qu

### Examples

    genes <- c('ENSG00000000938','ENSG00000000971','ENSG00000001036',
            'ENSG00000001084','ENSG00000001167','ENSG00000001460')
    pathways <- c("hsa05414~Dilated cardiomyopathy (DCM)",
                "hsa05410~Hypertrophic cardiomyopathy (HCM)",
                "hsa05412~Arrhythmogenic right ventricular cardiomyopathy",
                "hsa04512~ECM-receptor interaction",
                "hsa04510~Focal adhesion",
                "hsa04360~Axon guidance",
                "hsa04270~Vascular smooth muscle contraction",
                "hsa05205~Proteoglycans in cancer",
                "hsa04022~cGMP-PKG signaling pathway",
                "hsa00480~Glutathione metabolism")
    ## Not run: shinyPathview(gene=genes, pathways=pathways)

[Package GDCRNATools version 1.13.1 Index]