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Tutorial of single-cell RNA-ATAC multiomic sequencing data analysis in Python

This tutorial is about analyzing single-cell RNA-ATAC multiomic data in Python. It includes three sections:

  1. Mono-modal data analysis of the scMultiome data
  2. Bimodal data analysis of the scMultiome data
  3. Gene regulatory network inference with SCENIC+

The tutorial for scMultiome data analysis using R is available in the other GitHub repo.

The example data used in this tutorial is a part of the paper "Fate and state transitions during human blood vessel organoid development".

Please contact Dr. Zhisong He (zhisong.he(at)bsse.ethz.ch) or Prof. Barbara Treutlein (barbara.treutlein(at)bsse.ethz.ch) if there is any question.