Awesome

MUSTARD <img src="man/figures/logo.png" align="right" alt="" width="120" />

The R package MUSTARD (MUlti-Sample Trajectory-Assisted Reduction of Dimensions) implements a trajectory-guided dimensionality reduction method for multi-sample scRNA-seq data. This all-in-one decomposition reveals major gene expression variation patterns along the trajectory and across multiple samples simultaneously, providing opportunities to discover sample endotypes and associated genes.

Installation

To install the latest version of the R package from GitHub, please run following commands in R:

if (!require("devtools"))
install.packages("devtools")
devtools::install_github("haotian-zhuang/MUSTARD")

Vignettes

Detailed vignettes are available at this website.

Citation

Please cite the following paper: Zhuang, Haotian, Xin Gai, Anru R. Zhang, Wenpin Hou, Zhicheng Ji, and Pixu Shi. "Trajectory-guided dimensionality reduction for multi-sample single-cell RNA-seq data reveals biologically relevant sample-level heterogeneity." bioRxiv (2024): 2024-09.

Contact

Authors: Haotian Zhuang, Pixu Shi

Report bugs and provide suggestions by sending email to:

Maintainer: Haotian Zhuang (haotian.zhuang@duke.edu)

Or open a new issue on this GitHub page