Description
Converts the output from cellranger multi to a single .h5mu file. By default, will map the following library type names to modality names:
Gene Expression: rna
Peaks: atac
Antibody Capture: prot
VDJ: vdj
VDJ-T: vdj_t
VDJ-B: vdj_b
CRISPR Guide Capture: crispr
Multiplexing Capture: hashing
Other library types have their whitepace removed and dashes replaced by underscores to generate the modality name.
Currently does not allow parsing the output from cell barcode demultiplexing.
Type
python_script
Name | Type & Properties |
|---|---|
--input -i | file required |
--output -o | file output |
--output_compression | string |
--uns_metrics | string |