prepareSPIA {graphite} | R Documentation

## Prepare pathway dataset needed by runSPIA.

### Description

Prepare pathway dataset needed by runSPIA. See `runSPIA` and `spia` for more details.

### Usage

      prepareSPIA(db, pathwaySetName, print.names = FALSE)

### Arguments

`db` | a `PathwayList` object or a list of `Pathway`s.
`pathwaySetName` | name of the output pathway set.
`print.names` | print pathway names as the conversion advances.

### References

Tarca AL, Draghici S, Khatri P, Hassan SS, Mittal P, Kim JS, Kim CJ, Kusanovic JP, Romero R. A novel signaling pathway impact analysis. Bioinformatics. 2009 Jan 1;25(1):75-82.

Adi L. Tarca, Sorin Draghici, Purvesh Khatri, et. al, A Signaling Pathway Impact Analysis for Microarray Experiments, 2008, Bioinformatics, 2009, 25(1):75-82.

Draghici, S., Khatri, P., Tarca, A.L., Amin, K., Done, A., Voichita, C., Georgescu, C., Romero, R.: A systems biology approach for pathway level analysis. Genome Research, 17, 2007.

### See Also

`runSPIA`

`spia`

`PathwayList`

[Package graphite version 1.26.3 Index]