The plot was rendered using defaults from the ggplot2 library. The y-axis has a logarithmic scale. g Bar plot showing the integration density of HIV in super-enhancers located in different 3D sub-compartments. h Bar plot showing the contribution of different predictors to the HIV-1 insertion ...
Bar plots displaying the proportions of mutated bases in high-throughput RNA-seq reads were generated using ggplot2 (v3.5.0) (59). The counts of mutated bases were visualized and summarized using the Integrative Genomics Viewer (IGV) (61). The ratio was computed manually and then plotted usin...