Nori: Wrappers and add-ons for BentoBox functions

Overview

BentoBox gives users the ability to create and precisely control genomic plots in R. Nori extends BentoBox with useful wrappers and additional functionality.

Additional Features

APA (Aggregate Peak Analysis) Tools:

  1. bb_calcBedpe(): Calculates all potential paired interactions from a BED file.

  2. bb_filterBedpe(): Filters out interchromosomal interactions that would result in an APA plot that intersects the diagonal.

  3. bb_calcApa(): Efficiently extracts BEDPE interactions from a .hic matrix.

  4. bb_plotApa(): BentoBox-compatible APA plotting function.

Wrapper Functions (coming soon):

  1. bb_plotMulti(): Convenience wrapper function for plotting multiple bb_plots.

  2. bb_pageLayout(): Create a complex, reusable layouts for placing plots.

Dependencies

  1. Currently rtracklayer needs to be installed manually. To install
if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("rtracklayer")
  1. Package BentoBox:
remotes::install_github("PhanstielLab/BentoBox", force = T)

Installation

To install Nori, use the following code:

remotes::install_github(repo = "EricSDavis/Nori", ref = "Fork-Nori", force = T)

Usage

Coming Soon

License

TBD