clipper: Gene Set Analysis Exploiting Pathway Topology

Implements topological gene set analysis using a two-step empirical approach. It exploits graph decomposition theory to create a junction tree and reconstruct the most relevant signal path. In the first step clipper selects significant pathways according to statistical tests on the means and the concentration matrices of the graphs derived from pathway topologies. Then, it "clips" the whole pathway identifying the signal paths having the greatest association with a specific phenotype.

Getting started

Package details

AuthorPaolo Martini <>, Gabriele Sales <>, Chiara Romualdi <>
MaintainerPaolo Martini <>
Package repositoryView on Bioconductor
Installation Install the latest version of this package by entering the following in R:
if (!requireNamespace("BiocManager", quietly = TRUE))


Try the clipper package in your browser

Any scripts or data that you put into this service are public.

clipper documentation built on Nov. 8, 2020, 6:18 p.m.