Chunk #57 — Online Methods — 1. Data matrix, primary analysis and processing, quality control — 1.2 ChIP-seq and DNase-seq uniform reprocessing for consolidated epigenomes — d. Genome-wide signal coverage tracks
The -log10(p-value) scores provide a convenient way to threshold signal (e.g. 2 corresponds to a p-value threshold of 1e-2), similar to what is used in identifying enriched regions (peak calling). We recommend using the signal confidence score tracks for visualization. A universal threshold of 2 provides good separation between signal and noise. Both types of signal tracks were also generated for the unconsolidated datasets using the same parameter settings described above.
