enrichfindP {HPiP} | R Documentation

## Functional Enrichment Analysis for Pathogen Interactors in the High-Confidence Network.

### Description

This function uses `gost` function in `gprofiler2` package to perfrom functional enrichment analysis for pathogen interactors in the high-confidence network.

### Usage

    enrichfindP(
      ppi,
      threshold = 0.05,
      sources = c("GO", "KEGG"),
      p.corrction.method = "bonferroni",
      org = "hsapiens"
    )

### Arguments

`ppi` | A data.frame containing pathogen proteins in the first column and host proteins in the second column.
`threshold` | Custom p-value threshold for significance.
`sources` | A vector of data sources to use. See `gost` for more details.
`p.corrction.method` | The algorithm used for multiple testing correction;defaults to 'bonferroni'. See `gost` for more details.
`org` | An organism name;defaults to 'hsapiens'. See `gost` for more details.

### Details

enrichfindP

### Value

A data.frame with the enrichment analysis results.

### Author(s)

Matineh Rahmatbakhsh, matinerb.94@gmail.com

### See Also

See `enrichplot` for plotting enrichment analysis.

### Examples

    data('predicted_PPIs')
    #perform enrichment
    enrich.df <- enrichfindP(predicted_PPIs,
    threshold = 0.05,
    sources = c("GO", "KEGG"),
    p.corrction.method = "bonferroni",
    org = "hsapiens")

[Package HPiP version 1.0.0 Index]