Scatter Plots and Delta-Bar Plots

What's new in v0.5.0?

• Graph scatter plots and delta bar plots (i.e. the difference between two samples at each position) to visualize two mutational profiles over the same sequence.
  • Plots comparing two samples, as well as comparing different sources of data (e.g. masked vs. clustered) within one sample, are supported.
  • Plots involving two-sample comparisons are written to a sample directory named {sample1}__and__{sample2}.
  • Both ratios and counts are supported.
  • Stacked delta bar plots (breaking down differences between samples into each type of relation) are not supported.
• All graph types (except for stacked bar graphs) now support an option to normalize and winsorize ratiometric data (but not count-based data).
  • This feature is especially useful for delta bar plots comparing two samples with different levels of DMS/SHAPE treatment.
  • This feature works by specifying a quantile (--quantile / -q) in the range [0, 1] such that that quantile in the dataset is normalized to 1, all other data are scaled linearly, and any values greater than 1 (after scaling) are winsorized to 1.

Full Changelog: v0.4.1...v0.5.0