mpraSetExample {mpra}R Documentation

Example data for the mpra package.

Description

Example data for the MPRA package. The package contains data both at the barcode level and aggregated over barcodes. The data comes from a study by Inoue et al that compares episomal and lentiviral MPRA.

Usage

data("mpraSetExample")
data("mpraSetAggExample")

Format

An MPRASet.

Details

mpraSetExample contains barcode level information. mpraSetAggExample contains count information where the counts have been summed over barcodes for each element.

Source

A script from creating the two datasets are supplied in the scripts folder of the package. The data is taken from the GEO submission associated with the paper (see references), specifically GSE83894.

References

Inoue, Fumitaka, Martin Kircher, Beth Martin, Gregory M. Cooper, Daniela M. Witten, Michael T. McManus, Nadav Ahituv, and Jay Shendure. A Systematic Comparison Reveals Substantial Differences in Chromosomal versus Episomal Encoding of Enhancer Activity. Genome Research 2017, 27(1):38-52. doi: 10.1101/gr.212092.116.

Examples

data(mpraSetAggExample)

[Package mpra version 1.2.0 Index]