Analysis overview and quality-control (QC) summary. (A) Overview of the steps in Crunch's ChIP-seq analysis, which divides into three parts: preprocessing of the data, identification of the binding peaks, and regulatory motif analysis. (B) QC summary statistics for the BRCA1 data set. Statistics are separated into those associated with the mapping, the modeling of the ChIP signal, peak calling, and motif enrichment. For each statistic, a color gradient bar and indicator show how the statistic for this data set compares with those across the full set of ENCODE data sets, with green indicating relatively high quality and red relatively low quality.