oppar

oppar-package

The oppar package provides 3 main function for outlier profile analysis:
opa, getSampleOutlier and getSubtypeProbes, and 1 function for pathway and
gene set enrichment analysis, based on gsva function implemented in the GSVA package

The R implementation of mCOPA package published by Wang et al.
    (2012). Oppar provides methods for Cancer Outlier profile Analysis. Although
    initially developed to detect outlier genes in cancer studies, methods presented
    in oppar can be used for outlier profile analysis in general. In addition,
    tools are provided for gene set enrichment and pathway analysis.

Soroor Hediyeh zadeh

Outlier profile and pathway analysis in R

oppar function

calculates the outlier profile matrix, using the method proposed in Wang et al. (2012) paper

extracts outlier profile for individual samples

getSampleOutlier

extracts outlier profile for a group of related samples, such as subtypes

oppar: oppar: A package for outlier profile and pathway analysis.

Description

Arguments

opa

getSampleOutlier

getSubtypeProbes