Description Usage Arguments Value Examples
Compute the activation of cell cycle genes defined in Kowalczyk, M. S. et al.
1 | cell.cycle.score(environment, knn = 10, cc.genes.path = NA)
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environment |
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knn |
number of nearest neighbor |
cc.genes.path |
optional; path to defined cell cycle genes. Default uses gene sets defined in Kowalczyk, M. S. et al. Single-cell RNA-seq reveals changes in cell cycle and differentiation programs upon aging of hematopoietic stem cells. Genome Res 25, 1860-1872, doi:10.1101/gr.192237.115 (2015). |
a matrix of cell cycle genes activation scores (S, G2M and aggregated S/G2M scores, separately)
1 2 | LCMV1 <- setup_LCMV_example()
cell.cycle.score <- cell.cycle.score(LCMV1)
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