News:Announcing the EnrichmentBrowser 2.0
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@ludwig-geistlinger-3939
Last seen 23 days ago
USA/Boston/HMS
 Dear Bioconductors, I am delighted to announce a major re-release of the EnrichmentBrowser package in line with its recent publication: Geistlinger L, Csaba G, Zimmer R. Bioconductor's EnrichmentBrowser: seamless navigation through combined results of set- & network-based enrichment analysis. BMC Bioinformatics, 17:45, Jan 2016. http://doi.org/10.1186/s12859-016-0884-1 The EnrichmentBrowser is a meta-package implementing an analysis pipeline for high-throughput gene expression data as measured with microarrays and RNA-seq. Functionality includes data preparation, preprocessing, differential expression analysis, set- and network-based enrichment analysis, combination as well as visualization and exploration of results. In a workflow-like manner, the package brings together a selection of finest Bioc packages which have shown to work distinghuishably well in practice for the respective purposes. Additional features of the package are the adaption of enrichment methods using sample permutation for RNA-seq read count data, an improved implementation of the network-based enrichment method GGEA (Geistlinger et al., Bioinformatics, ISMB/ECCB 2011), and novel ways of combining and exploring results across methods. Comments and suggestions to further improve the EnrichmentBrowser are highly appreciated.