# scibet

**Repository Path**: bioxfu/scibet

## Basic Information

- **Project Name**: scibet
- **Description**: No description available
- **Primary Language**: Unknown
- **License**: BSD-3-Clause
- **Default Branch**: master
- **Homepage**: None
- **GVP Project**: No

## Statistics

- **Stars**: 0
- **Forks**: 0
- **Created**: 2021-11-23
- **Last Updated**: 2021-11-23

## Categories & Tags

**Categories**: Uncategorized

**Tags**: None

## README

# SciBet
A portable and fast single cell type identifier

## Contents

- [Overview](#overview)
- [Installation Guide](#installation-guide)
- [Tutorial](#tutorial)
- [Reproduction instructions](#Reproduction-instructions)
- [License](./LICENSE)
- [Citation](#citation)
- [Contact](#Contact)

## Overview
Fast, robust and technology-independent computational methods are needed for supervised cell type annotation of single-cell RNA sequencing data. We present SciBet, a single-cell classifier that accurately predicts cell identity for newly sequenced cells or cell clusters. We enable [web client deployment of SciBet](http://scibet.cancer-pku.cn/) for rapid local computation without uploading local data to the server. This user-friendly and cross-platform tool can be widely useful for single cell type identification.

## Installation Guide
**Installing dependency package**  
Before installing SciBet, the dependency packages should be installed first:
```
install.packages("Rcpp")
install.packages("RcppEigen")
install.packages("ggsci")
install.packages("viridis")
install.packages("tidyverse")
```
**Installing SciBet**  
To install SciBet, run:
```
if (!requireNamespace("devtools", quietly = TRUE)) install.packages("devtools")
devtools::install_github("PaulingLiu/scibet")
```

## Tutorial
For more details and basic usage see following tutorials:
1.	[Guided Tutorial](http://scibet.cancer-pku.cn/document.html)

## Reproduction instructions
The scripts for producing all the quantitative results in our manuscript can be found in [scripts](./scripts).

## Citation
If you use SciBet in your research, please considering citing:
- [Li et al., Nature Communications 2020](https://www.nature.com/articles/s41467-020-15523-2)

## Contact
Please contact us:  

Baolin Liu: pauling.liu@pku.edu.cn  
Boxi Kang: chrisk@pku.edu.cn  
Chenwei Li: lichenwei@pku.edu.cn  
Zemin Zhang: zemin@pku.edu.cn

## Copyright
©2019 Chenwei Li, Baolin Liu, Boxi Kang. [Zhang Lab](http://cancer-pku.cn/). All rights reserved.