/codes_CellReports2019

codes for the pseudotime analysis in our paper published in Cell Reports 2020

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Codes and Walkthroughs for the pseudotime analysis in our Cell Reports paper (Haensel and Jin et al. 2020)

This repository provides the codes and walkthroughs to reproduce the pseudotime analysis in our paper published in Cell Reports (Haensel and Jin et al. 2020).

Instruction

We provides three walkthroughs to reproduce the pseudotime analysis using both scEpath and Monocle 3.

  • Performs UMAP projection of interfollicular epidermal cells using Seurat v2: please check Walkthrough
  • Run pseudotime analysis using scEpath: please check Walkthrough
  • Run pseudotime analysis using Monocle 3: please check Walkthrough

Annotation of mouse wounded and unwounded skin

Cell annotations and tsne coordinates in Figure 2A and 2B are provided.

Help

If you have any problems, comments or suggestions, please contact us at Suoqin Jin (sqjin@whu.edu.cn).