Fig. 5
From: Theoretical characterisation of strand cross-correlation in ChIP-seq
ChIP-seq QC workflow using VSN and its demonstration. a A ChIP-seq QC workflow using VSN. VSN can be obtained before peak calling and can be compared between replicates as S/N (blue boxes). If VSN values for public data are available, experimentalists can rank their samples against previous experiments. Moreover, n- α regression enables the estimation of the expected number of peaks and S/N separately before peak calling (green boxes). b Example of VSN distribution. c Example of n- α regression. d Comparison between actual FRiP values and S/Rs estimated by VSN and the regression equation. e Comparison between the actual number of called peaks and the expected number of peaks