selprofile


Ranklist which has the rank of each gene according to differential expression. P-values is the second element in the list containing the associated p-value for gene differential expression.


datasets

This package generates ranked lists of differential gene
expression for either disease or drug profiles. Input data can
be downloaded from Array Express or GEO, or from local CEL
files. Ranked lists of differential expression and associated
p-values are calculated using Limma. Enrichment scores
(Subramanian et al. PNAS 2005) are calculated to a reference
set of default drug or disease profiles, or a set of custom
data supplied by the user. Network visualisation of significant
scores are output in Cytoscape format.

j SaezRodriguez

DrugVsDisease

Comparison of disease and drug profiles using Gene set
Enrichment Analysis

selprofile function

List with two elements, the first ranklist containing the ranked position of the gene according to its differential expression. The second item in the list is the associated pvalues.

Format

<a href="http://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-22528">http://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-22528</a>

Source

Ranklist which has the rank of each gene according to differential expression. P-values is the second element in the list containing the associated p-value for gene differential expression.

selprofile: List: Differential gene expression and p-values

Description

Usage

Arguments

Format

Source

Details

Examples