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DiffBind (version 2.0.2)

DiffBind-package: Differential Binding Analysis of ChIP-seq peaksets

Description

Differential binding analysis of ChIP-seq peaksets

Arguments

Details

Computes differentially bound sites from multiple ChIP-seq experiments using affinity (quantitative) data. Also enables occupancy (overlap) analysis and plotting functions.

Entry Points:

dba:
Construct a dba object
dba.peakset:
Add a peakset to, or retrieve a peakset from, a dba object

dba.overlap: Compute binding site overlaps and/or correlations dba.count: Count reads in binding sites dba.contrast: Establish contrast(s) for analysis dba.analyze: Execute affinity analysis dba.report: Generate report for a contrast analysis

dba.plotHeatmap: Heatmap plot dba.plotPCA: Principal Components plot dba.plotBox: Boxplots dba.plotMA: MA/scatter plot dba.plotVenn: Venn diagram plot dba.show: Show dba metadata dba.mask: Mask samples or sites dba.save: Save dba object dba.load: Load dba object