ScPlant: A versatile framework for single-cell transcriptomic data analysis in plants.

ABSTRACT: Single-cell transcriptomics has been fully embraced in plant biological research and is revolutionizing our understanding of plant growth, development, and responses to external stimuli. However, single-cell transcriptomic data analysis in plants is not trivial, given that there is currently no end-to-end solution and that integration of various bioinformatics tools involves a large number of required dependencies. Here, we present scPlant, a versatile framework for exploring plant single-cell atlases with minimum input data provided by users. The scPlant pipeline is implemented with numerous 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

SUBMITTER: Cao S 

PROVIDER: S-EPMC10504592 | biostudies-literature | 2023 Sep

REPOSITORIES: biostudies-literature