mpraprofiler

The goal of mpraprofiler is to create a simple tool to perform allelic
differential expression analysis for massively parallel reporter assay
(MPRA) data.

Installation

You can install mpraprofiler from
GitHub with:

install.packages("devtools")  # if not already installed
devtools::install_github("WeirauchLab/mpraprofiler")

To build the vignette(s), install some additional packages

install.packages("tidyverse")
install.packages("readxl")
# You'll need Bioconductor to get DESeq2
install.packages("BiocManager")
BiocManager::install('DESeq2')

…and add build_vignettes = TRUE to the install command:

devtools::install_github("WeirauchLab/mpraprofiler", build_vignettes = TRUE,
                         force = TRUE)

Example Usage

Please refer to
vignettes/sample_analysis.md for
details.

How to cite

Xiaoming Lu, mpraprofiler, (2020), GitHub repository,
https://github.com/WeirauchLab/mpraprofiler

Contributors

Name	Institution	Remarks
Dr. Xiaoming Lu	Cincinnati Children’s Hospital	primary author
Kevin Ernst	Cincinnati Children’s Hospital	minor documentation and packaging fixes

License

Copyleft Cincinnati Children’s Hospital Medical Center and contributors.

Released under the terms of the GNU General Public License v3. See
LICENSE.md for details.