Package: CellOracleR 0.1.0

CellOracleR: In Silico Gene Perturbation Analysis with Single-Cell Data

An R implementation of the CellOracle framework for in silico gene perturbation analysis and gene regulatory network (GRN) inference from single-cell RNA-seq data. Predicts cell state transitions in response to transcription factor perturbations by combining GRN models with single-cell expression data. Key features include motif analysis for base GRN construction, cluster-specific GRN inference using regularized regression, perturbation simulation with signal propagation, and comprehensive visualization of predicted cell fate changes. Based on the methodology described in Kamimoto et al. (2023) <doi:10.15252/msb.202211547>.

Authors:Zaoqu Liu [aut, cre], Kenji Kamimoto [ctb]