Rcade (which stands for "R-based analysis of ChIP-seq And Differential Expression") is a tool for integrating ChIP-seq data with differential expression summary data, through a Bayesian framework. A key application is in identifing the genes targeted by a transcription factor of interest - that is, we collect genes that are associated with a ChIP-seq peak, and differential expression under some perturbation related to that TF.
|Date of publication||None|
|Maintainer||Jonathan Cairns <email@example.com>|
constructRcadeTable: Construct Rcade Table
countReads: Count Reads
defineBins: Define Bins
diffCountsBaySeq: Differential Counts wrapper - BaySeq
exportRcade-methods: exportRcade and ...
RcadeAnalysis: Rcade Analysis
Rcade-class: Rcade Class
RcadeSTAT1: Rcade object - STAT1 data
RcadeTrack-class: RcadeTrack Class