/h5ad-annotation

Primary LanguageJupyter Notebook

Changing h5ad CL annotations

This is a repo that contains a python script to change cell type annotations on h5ad files from CellXGene

Workflow

  1. Download h5ad file in h5ad-downloads folder (this is ignored by GitHub)
  2. Open Jupyter Notebook
  3. In Jupyter Notebook, navigate to BDSO-annotation.ipynb
  4. Follow instructions in the notebook
  5. Mappings can be added to mappings.tsv