ChIPMonk: software for viewing and analysing ChIP-on-chip data. - Simon R. Andrews (BMC Syst. Biol., 2007)

Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications. - Felix Krueger; Simon R. Andrews (Bioinform., 2011)

Cluster Flow: A user-friendly bioinformatics workflow tool. - Philip Ewels; Felix Krueger; Max Käller; Simon R. Andrews (F1000Research, 2016)