scirpy.datasets.vdjdb
- scirpy.datasets.vdjdb(cached=True, *, cache_path='data/vdjdb.h5ad')
Download VDJdb and process it into an AnnData object.
VDJdb [BVS+19] is a curated database of T-cell receptor (TCR) sequences with known antigen specificities.
- Parameters
- cached :
bool(default:True) If
True, attempt to read from thedatadirectory before downloading- cache_path
Location where the h5ad object will be saved
- cached :
- Return type
- Returns
An anndata object containing all entries from VDJDB in
obsm["airr"]. Each entry is represented as if it was a cell, but without gene expression. Metadata is stored inadata.uns["DB"].