A Versatile Framework for Single-cell Transcriptomic Data Analysis in Plants • scPlant

scPlant: a versatile framework for single-cell transcriptomic data analysis in plants.

The scPlant pipeline is implemented with plentiful functions for diverse analytical tasks, ranging from basic data processing to advanced demands such as cell type annotation and deconvolution, trajectory inference, cross-species data integration and cell-type specific gene regulatory network construction.

Installation

First, install devtools (for installing GitHub packages) if it isn’t already installed:

if (!requireNamespace("devtools", quietly = TRUE)) install.packages("devtools")

Then, install scPlant:

devtools::install_github("compbioNJU/scPlant")

Example

Please see website: https://compbioNJU.github.io/scPlant

Please cite:

Cao, S., He, Z., Chen, R., Luo, Y., Fu, L.-Y., Zhou, X., He, C., Yan, W., Zhang, C.-Y., Chen, D., scPlant: a versatile framework for single-cell transcriptomic data analysis in plants, PLANT COMMUNICATIONS (2023), doi: https://doi.org/10.1016/j.xplc.2023.100631.