Additional file 2 of Comprehensive assessment of differential ChIP-seq tools guides optimal algorithm selection

Additional file 2: Table S1. QC metrics of genuine ChIP-seq data. Table of QC metrics of publicly available ChIP-seq datasets used for sub-sampling with DCSsub. The first six columns represent information on the original sample names, type (if genuine data or merged for subsequent sub-sampling), their peak shape, the replicate, and sample numbers and the regulation scenario in the original experiments respectively. The next columns show the total read number, the nonredundant read number, read length, and estimated fragment length. The QC metrics consist of the normalized strand coefficient (NSC) and the relative strand correlation (RSC) from cross-correlation analysis as signal-to-noise indicator, the background uniformity as a measure for peak reliability (by looking at the distribution of the mapped reads), and the fragment cluster score (FCS) for various strand shifts (read, fragment, 1k, 10k and 100k) to identify peak mode and intensity.