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Heart_MERFISH_analysis

This repository contains the code for the analysis of Spatially organized cellular communities form the developing human heart.

Raw (count matrices as .csv files) and processed data (.rds and .h5ad files) are accessible at Dryad.

The notesbooks in analysis folder are used to generate the figures in the manuscript. They should be read in the following order:

  1. MERFISH_processing
  2. MERFISH_analysis
  3. MERFISH_ventricle_community_analysis
  4. MERFISH_ventricle_depth_analysis
  5. MERFISH_scRNAseq_integration
  6. community_signaling_analysis
  7. MERFISH_replicate_heart_analysis

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