A tool for analysis of single-cell RNA-seq data. The scEpath (single-cell Energy path) algorithm induces cellular trajectories based on Waddington's landscape metaphor of cell development. The algorithm also identifies significant marker genes and transcription factors. Note, requires the R package "princurve."
Cell biology; Transcriptomics; RNA-seq
Jin S, MacLean AL, Peng T, Nie Q "scEpath: energy landscape-based inference of transition probabilities and cellular trajectories from single-cell transcriptomic data." Bioinformatics. 2018 Jun 15;34(12):2077-2086. https://doi.org/10.1093/bioinformatics/bty058
PMID: 29415263
PMCID: PMC6658715
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