CellFunTopic

Cell-Type Inference and Functional Annotation for Single-Cell Transcriptomics Using Functional Signatures.

CellFunTopic enables rapid, automated, effective cell type annotation transfer across datasets and species. In addition, CellFunTopic provides a variety of meaningful visualization methods for functional annotation of single-cell transcriptomics, most of which can be explored interactively in the built-in shiny app.

Installation

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

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

Then, install CellFunTopic:

devtools::install_github("compbioNJU/CellFunTopic")

Example

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

Citation

Please cite this paper if you use CellFunTopic:

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.