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peco is an R package for PrEdicting Cell cycle prOgression in a continuum using scRNA-seq data. peco provides functions to build a training data set and predict cell cycle on a continuum.


To install and load the package, run:


For for a detailed illustration of peco, see the vignette.


Please contact Joyce Hsiao at for questions on the package or the methods.

How to cite

Hsiao, C. J., Tung, P., Blischak, J. D., Burnett, J., Dey, K. K., Barr, A. K., Stephens, M., and Gilad, Y. (2020). Characterizing and inferring quantitative cell cycle phase in single-cell RNA-seq data analysis. Genome Biology, 30(4): 611-621, doi:10.1101/gr.247759.11


Copyright (c) 2019-2020, Joyce Hsiao.

All source code and software in this repository are made available under the terms of the GNU General Public License. See file LICENSE for the full text of the license.

jhsiao999/peco documentation built on Nov. 21, 2020, 5:34 p.m.