BPReveal Documentataion
BPReveal is a suite of tools for working with sequence-to-profile models in the vein of BPNet.
It incorporates bias correction in the style of chrombpnet-lite, but with added features to regress out very complex biases.
It also incorporates a new interpretation tool, called PISA (Pairwise Interaction Shap Analysis) that lets you view a two-dimensional map of cause and effect over a region.
For a summary of the components of BPReveal, see Programs.
Contact
The principal contact is Charles McAnany. His Stowers address is cm2363@stowers.org, and his personal address is bpreveal@charlesmcanany.com.
At Stowers, Melanie Weilert is an excellent resource, she is the staff bioinformatician in the Zeitlinger lab.
If you’re at Stowers and want to use BPReveal for a project, the fine folks in Computational Biology are familiar with the package and can get you set up.
Source Code
You can get your own copy of BPReveal from the project’s GitHub page.