Learn R Programming

SPIA (version 2.24.0)

Signaling Pathway Impact Analysis (SPIA) using combined evidence of pathway over-representation and unusual signaling perturbations

Description

This package implements the Signaling Pathway Impact Analysis (SPIA) which uses the information form a list of differentially expressed genes and their log fold changes together with signaling pathways topology, in order to identify the pathways most relevant to the condition under the study.

Copy Link

Version

Version

2.24.0

License

file LICENSE

Maintainer

Adi Laurentiu Tarca

Last Published

February 15th, 2017

Functions in SPIA (2.24.0)

combfunc

Combining two p-values using Fisher's product or normal inversion method
plotP

SPIA two-way evidence plot
SPIA-internal

Internal SPIA functions
colorectalcancer

Results from a microarray experiment comparing colorectal cancer samples and normal tissue samples.
makeSPIAdata

Process KGML files for spia analysis
Vessels

Results from a microarray expriment comparing umbilical veins and arteries tissues
spia

Signaling Pathway Impact Analysis (SPIA) based on over-representation and signaling perturbations accumulation