EaSeq enables interactive exploration, visualization and analysis of genome-wide single-read sequencing data (mainly ChIP-seq). It has a point-and-click interface and runs on a Windows 7,8, or 10 PC or virtual machine.
Visualizations can switch between individual genomic loci (as in a genome browser) and thousands of loci at a time as e.g. a plot of average signal, a scatter diagram, or a clustered heatmap. Subsets of loci can be inspected just by selecting them in a plot. >20 analysis tools are integrated, including peak-finding, quantitation, normalization, clustering, distance analysis, randomization, scoring, and normalization.
Plots can be rearranged, duplicated, and instructed to show another population of genomic loci, so an existing visualization of e.g. CpG-islands can nimbly be reused to make a similar visualization of a set of enhancers. EaSeq autogenerates legends and descriptions of the handling and can store plots together with underlying data and these descriptions as a single compact file.