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2. Implement the preprocess_data rule #2

Description

@ebriars

Hint: This rule uses the preprocess.py step

This rule should do the following:

  • Take the output of the download_data rule as input
  • Specify parameters to filter the data such that the minimum number of cells is 3, the minimum number of genes is 200, the maximum percent of mitochondrial reads is 5%, and the number of highly variable genes to retain is 2000
  • Output a processed '.h5ad' file. You should put this in some type of data directory. (Hint: can you specify different directories for raw and processed data?)

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