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.
if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("GenomicDistributions")
Or from GitHub:
GenomicDistributionsData: includes full data files, too large to include in GenomicDistributions
See the vignettes for more information: http://code.databio.org/GenomicDistributions
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_vignettes/render-long-vignettes.R. This will use
knitr to run the vignette and put the result into the
vignettes folder, along with output figures.
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