Read .loom
-formatted hdf5 file.
Usage
read_loom(
filename,
sparse = TRUE,
cleanup = FALSE,
X_name = "spliced",
obs_names = "CellID",
obsm_names = NULL,
var_names = "Gene",
varm_names = NULL,
dtype = "float32",
...
)
Arguments
- filename
The filename.
- sparse
Whether to read the data matrix as sparse.
- cleanup
Whether to collapse all obs/var fields that only store one unique value into
.uns['loom-.']
.- X_name
Loompy key with which the data matrix
AnnData.X
is initialized.- obs_names
Loompy key where the observation/cell names are stored.
- obsm_names
Loompy keys which will be constructed into observation matrices
- var_names
Loompy key where the variable/gene names are stored.
- varm_names
Loompy keys which will be constructed into variable matrices
- dtype
Numpy data type.
- ...
Arguments to loompy.connect