GenomicDistributions: fast analysis of genomic intervals with Bioconductor (original) (raw)

Master	Dev

An R package that provides functions for 1) calculating and 2) visualizing a variety of statistics for a collection of genomic ranges. If you have a set of genomic ranges, such as a BED file the GenomicDistributions R package can help you to explore, annotate, visualize,and compare it.

Installing

Main package

With Bioconductor:

Or from GitHub:

Building long vignettes

In the long_vignettes are vignettes that require large external data and take a long time to run. Therefore, they should be pre-built. You can render them manually by running <long%5Fvignettes/render-long-vignettes.R>. This will use knitr to run the vignette and put the result into the vignettes folder, along with output figures.

Cite GenomicDistributions:
Kupkova K., Mosquera J.V., Smith J.P., Stolarczyk M, Danehy T., Lawson J.T., Rogers S., LeRoy N., Sheffield N.C. GenomicDistributions: fast analysis of genomic intervals with Bioconductor. BMC Genomics 23, 299 (2022). https://doi.org/10.1186/s12864-022-08467-y