Performs popular major vote cell typing on single cell sequence data using multiple algorithms.

Cluster cells using the [Leiden algorithm] [Traag18] implemented in the [Scanpy framework] [Wolf18].

Compress a MuData file.

Extract files from a tar archive

Converts a 10x h5 into an h5mu file.

Converts a 10x mtx into an h5mu file.

Convert the molecular barcode sequence SAM tag from BD format (MA) to 10X format (UB).

Convert the output of a BD Rhapsody WTA pipeline to a MuData h5 file.

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.

Converts a single layer h5ad file into a single MuData object