xu-lab / SINCERA

An R implementation of the SINCERA pipeline for single cell RNA-seq profiling analysis

https://research.cchmc.org/pbge/sincera.html

GNU General Public License v3.0

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celltype driving signature single-cell-rna-seq

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SINCERA

An R S4 implementation of the SINCERA pipeline for single-cell RNA-seq profiling analysis

Developed by Minzhe Guo

Installation

In R or RStudio, type the following command to install devtools
```
install.packages("devtools")
library(devtools)
```
Then, use devtools to install SINCERA from github
```
devtools::install_github("xu-lab/SINCERA")
```
Use library() to activate SINCERA
```
library(SINCERA)
```

Demonstration

A demonstration of using SINCERA to analysis E16.5 mouse lung single cell data can be found at https://github.com/minzheguo/SINCERA/blob/master/demo/mouselung.e16.5.R.
A demonstration of using SINCERA to analysis Human IPF and normal epithelial single cell data can be found at https://github.com/minzheguo/SINCERA/blob/master/demo/humanIPF.R.

Citation

Guo M, Wang H, Potter S, Whitsett JA, Xu Y. 2015. SINCERA: A Computational Pipeline for Single Cell RNA-seq Profiling Analysis. PLoS Computational Biology. 11:11, e1004575.