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Preprocessing and clustering 3k PBMCs (legacy workflow) — scanpy scanpy.readthedocs.io
https://scanpy.readthedocs.io/en/stable/tutorials/basics/clustering-2017.html
  • The official ScanPy tutorial
  • A generic scRNA-seq analysis workflow implemented in Python
  • A reproduction of the popular Seurat tutorial but in Python using ScanPy
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Analysis, visualization, and integration of Visium HD spatial datasets with Seurat • Seurat satijalab.org
https://satijalab.org/seurat/articles/pbmc3k_tutorial.html
  • The official Seurat tutorial from the Satija lab
  • Covers all the basics of a generic scRNA-seq analysis workflow in R
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