Journal article

Easy and efficient ensemble gene set testing with EGSEA.

Monther Alhamdoosh, Charity W Law, Luyi Tian, Julie M Sheridan, Milica Ng, Matthew E Ritchie

F1000Res | Published : 2017

Abstract

Gene set enrichment analysis is a popular approach for prioritising the biological processes perturbed in genomic datasets. The Bioconductor project hosts over 80 software packages capable of gene set analysis. Most of these packages search for enriched signatures amongst differentially regulated genes to reveal higher level biological themes that may be missed when focusing only on evidence from individual genes. With so many different methods on offer, choosing the best algorithm and visualization approach can be challenging. The EGSEA package solves this problem by combining results from up to 12 prominent gene set testing algorithms to obtain a consensus ranking of biologically relevant ..

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