Ben Green

icon company Johns Hopkins University icon location Baltimore, MD icon location Graduate Student at Johns Hopkins University.

Results 2 comments of Ben Green

Leiden clustering algorithm crashes on scanpy graph

Ran into this issue as well, the ``scanpy`` function just builds a ``np.random.RandomState`` and passes that to ``igraph.set_random_number_generator``. So thinking the issue is in ``igraph`` (more where I think this...

Let PointsModel be a dask or pandas dataframe

The entire wall time for this is in PointsModel.parse() here: https://github.com/scverse/spatialdata/blob/872f8c219fda0e348af056143af9be61a34e8ca5/src/spatialdata/models/models.py#L871 would suggest allowing for a mapping of column names to categories as input to PointsModel.parse() and reading the unique...