README.md

In PaulingLiu/scibet: SciBet(Single-Cell Identifier Based on Entropy Test)

SciBet

A portable and fast single cell type identifier

Contents

• Overview
• Installation Guide
• Tutorial
• Reproduction instructions
• License
• Citation
• 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 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

Reproduction instructions

The scripts for producing all the quantitative results in our manuscript can be found in scripts.

Citation

If you use SciBet in your research, please considering citing: - Li et al., Nature Communications 2020

Contact

Please contact us:

Baolin Liu: [e-mail] Boxi Kang: [e-mail] Chenwei Li: [e-mail] Zemin Zhang: [e-mail]

Copyright

©2019 Chenwei Li, Baolin Liu, Boxi Kang. Zhang Lab. All rights reserved.

PaulingLiu/scibet documentation built on April 17, 2021, 7:33 a.m.