PE {SMAD} | R Documentation

## PE

### Description

PE Incorporated both spoke and matrix model.

### Usage

    PE(datInput, rBait = 0.37, cntPseudo = 1)

### Arguments

`datInput` | A dataframe with column names: idRun, idBait, idPrey, Each row represent one unique protein captured in one pull-down experiment.
`rBait` | The value of the 'r' parameter as desribed in the publication.
`cntPseudo` | The value of the 'pseudo count' parameter.

### Value

A dataframe consists of protein-protein interactions from both Spoke and Matrix model.

### Author(s)

Qingzhou Zhang, zqzneptune@hotmail.com

### References

Collins, Sean R., et al. "Toward a comprehensive atlas of the physical interactome of Saccharomyces cerevisiae." Molecular & Cellular Proteomics 6.3 (2007): 439-450. https://doi.org/10.1074/mcp.M600381-MCP200

### Examples

    data(TestDatInput)
    datScore <- PE(TestDatInput, 0.37, 1)
    head(datScore)

[Package SMAD version 1.8.0 Index]