# R-based analysis of ChIP-seq And Differential Expression - a tool for integrating a count-based ChIP-seq analysis with differential expression summary data

## Documentation for package ‘Rcade’ version 1.16.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

constructRcadeTable | Construct Rcade Table
countReads | Count Reads
defineBins | Define Bins
diffCountsBaySeq | Differential Counts wrapper - BaySeq
exportRcade | exportRcade and ...
exportRcade-method | exportRcade and ...
exportRcade-methods | exportRcade and ...
getChIP | Rcade Class
getChIP-method | Rcade Class
getChIP<- | Rcade Class
getChIP<--method | Rcade Class
getDE | Rcade Class
getDE-method | Rcade Class
getDE<- | Rcade Class
getDE<--method | Rcade Class
getRcade | Rcade Class
getRcade-method | Rcade Class
getRcade<- | Rcade Class
getRcade<--method | Rcade Class
plotBB | Rcade Class
plotBB-method | Rcade Class
plotBBB | Rcade Class
plotBBB-method | Rcade Class
plotMM | Rcade Class
plotMM-method | Rcade Class
plotPCA | Rcade Class
plotPCA-method | Rcade Class
Rcade-class | Rcade Class
RcadeAnalysis | Rcade Analysis
RcadeSTAT1 | Rcade object - STAT1 data
RcadeTrack-class | RcadeTrack Class