/scLink

Inferring gene co-expression networks from single cell gene expression data

Primary LanguageR

scLink: Inferring gene networks from single-cell gene expression data

Wei Vivian Li

Rutgers Department of Biostatistics and Epidemiology

Latest News

2020/06/01: Version 1.0.0 released!

2020/03/05: Version 0.0.9 released!

Introduction

Any suggestions on the package are welcome! For technical problems, please report to Issues. For suggestions and comments on the method, please contact Vivian (vivian.li@rutgers.edu).

You can also browse scLink's applications and results at its web app.

Installation

The package is available on CRAN. For installation please use the following codes in R

install.packages("scLink")

In addition, please also install the QUIC package

install.packages("QUIC")

Quick start

scLink has three main functions:

  • sclink_norm for pre-processing gene expression data
  • sclink_cor for calculating the co-expression matrix by scLink
  • sclink_net for constructing the gene co-expression network by scLink

For detailed usage, please refer to the package manual or vignette.