RT Journal Article
SR Electronic
T1 MicroScope: ChIP-seq and RNA-seq software analysis suite for gene expression heatmaps
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 034694
DO 10.1101/034694
A1 Bohdan B. Khomtchouk
A1 James R. Hennessy
A1 Claes Wahlestedt
YR 2016
UL http://biorxiv.org/content/early/2016/07/04/034694.abstract
AB We propose a user-friendly ChIP-seq and RNA-seq software suite for the interactive visualization and analysis of genomic data, including integrated features to support differential expression analysis, interactive heatmap production, principal component analysis, gene ontology analysis, and dynamic network analysis.MicroScope is hosted online as an R Shiny web application based on the D3 JavaScript library: http://microscopebioinformatics.org/. The methods are implemented in R, and are available as part of the MicroScope project at: https://github.com/Bohdan-Khomtchouk/Microscope.FDRfalse discovery rateGOgene ontologyUIuser interfacePCAprincipal component analysisDEdifferential expressionqCMLquantile-adjusted conditional maximum likelihood