In mcjmigdal/xcoredata: data package for xcore

knitr::opts_chunk$set(collapse = TRUE)

Exploring the data in xcoredata

library("xcoredata")

xcoredata contains the following objects, which can be accessed directly with named functions:

# FANTOM5 promoters
promoters_f5()
promoters_f5_core()

# ReMap2020 molecular signatures
remap_promoters_f5()
remap_meta()

# ChIP-Atlas molecular signatures
chip_atlas_promoters_f5()
chip_atlas_meta()

Alternatively, these objects can be accessed using the ExperimentHub interface, eg.:

library("ExperimentHub")

eh <- ExperimentHub()
query(eh, "remap_meta")
eh[["EH7299"]]

For details on these resources see object's documentation eg. ?remap_meta. The construction scripts are located under inst/scripts, especially look into inst/scripts/make-data.Rmd.