MetaNorm: Incorporating Meta-analytic Priors into Normalization of NanoString nCounter Data

MetaNorm is a normalization procedure for Nanostring nCounter datasets.

Here is a quick overview of the structure of the model:

For a more detailed exploration of our model, please refer to our paper:

Dependencies

Here we list the dependencies of the package.

Note

Other than R, there is no need for you to install those packages manually as they will be installed while installing MetaNorm

Dependencies

Package	Version
R	>=4.0.2
Rcpp	>=1.0.10
RcppArmadillo	>=0.12.4
mvtnorm	>=1.1
MASS	>=17.3
truncnorm	>=1.0
progress	>=1.2.2

Installation

For the stable version:

library(devtools)
install_github("jbarth216/MetaNorm",subdir="MetaNorm", ref="main")

or if you want to try out the development version:

install_github("Yuqiu-Yang/MetaNorm", subdir="MetaNorm", ref="main")

User Guide / Tutorial

This package contains two main projects: mete analysis and MetaNorm. They are described in detail below.

Meta Analysis

• Meta-analysis of Nanostring nCounter datasets

Normalization

• MetaNorm

Resources

For our paper, read our preprint here.

For more resources, please visit the following:

• Dr. Xinlei (Sherry) Wang

• Dr. Jackson Barth faculty page

• Yuqiu Yang

• Dr. Guanghua (Andy) Xiao

• SMU M3 high-performance computing (HPC) cluster

For project development and newest updates, consider visiting the following:

• Our Github

Indices and tables

• Index

• Module Index

• Search Page