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GeneExpressionSignature (version 1.18.0)

Gene Expression Signature based Similarity Metric

Description

This package gives the implementations of the gene expression signature and its distance to each. Gene expression signature is represented as a list of genes whose expression is correlated with a biological state of interest. And its distance is defined using a nonparametric, rank-based pattern-matching strategy based on the Kolmogorov-Smirnov statistic. Gene expression signature and its distance can be used to detect similarities among the signatures of drugs, diseases, and biological states of interest.

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Version

Version

1.18.0

License

GPL-2

Maintainer

Yang Cao

Last Published

February 15th, 2017

Functions in GeneExpressionSignature (1.18.0)

RankMerging

Merging the ranker lists with the same labels of the biological states into a single list with the Iorio's method.
getRLs

Convert gene expression profiles to a ranked list (data preprocessing)
SignatureDistance

Compute pairwise distances comprehensively.
GeneExpressionSignature

Introduction to the GeneExpressionSignature Package
exampleSet

sample data, a subset of the C-MAP
ScorePGSEA

Compute pairwise distances between samples with method in package PGSEA
ScoreGSEA

Compute pairwise distances between samples with method in package GSEA