customDB

Matrix containing a set of ranked gene expression profiles which can be used as custom input into classifyprofiles.

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

customDB function

<href>http://www.broadinstitute.org/cmap/</href>{http://www.broadinstitute.org/cmap/}

customDB: Custom Gene Expression Profiles

Description

Usage

Arguments

source

Details

Examples