annohdcell

Python package wrapper of bin2cell for 10 HD spatial transcriptomics identify cell

Installation

pip install annohdcell

Usage

Command Line Interface

Process HD spatial data from bins to cells:

annohdcell bin2cell \
  -d /path/to/square_002um \
  -s /path/to/square_002um/spatial \
  -t /path/to/image.tif \
  -o /path/to/output

Transform h5ad file for R compatibility:

annohdcell h5trans \
  -c /path/to/input.h5ad \
  -o /path/to/output.h5ad

Documentation

Full API documentation is available at ReadTheDocs

License

MIT