README.md

In MattMyint/ezSingleCell: Interactive single-cell data analysis via the Seurat pipeline

ezSingleCell: Interactive single-cell data analysis via the Seurat pipeline

NOTE: The version hosted here has been deprecated and the development version is hosted at https://github.com/JinmiaoChenLab/ezSingleCell

ezSingleCell

Formerly known as ezSeurat, this package provides a user friendly GUI implementation of Seurat analysis pipeline, from input of expression sparse matrices to DEG analysis. This package was designed to allow analysis to be done with easier changing of visualisation parameters.

Installation

As this is an R package, it is assumed you have R installed. However, do ensure that you're using the latest version. It is also recommended to run R via RStudio.

To install ezSingleCell:

library("devtools")
install_github("JinmiaoChenLab/ezSingleCell")

Usage

After successfully installing ezSingleCell, run the following:

library("ezSingleCell")
ezSingleCell()

Acknowledgements

Many thanks to Satija Lab for developing Seurat

Rahul Satija, Andrew Butler and Paul Hoffman (2017). Seurat: Tools for Single Cell Genomics. R package version 2.0.1. https://CRAN.R-project.org/package=Seurat

MattMyint/ezSingleCell documentation built on May 8, 2019, 1:36 a.m.