muon.atac.pp.scopen

muon.atac.pp.scopen(data: Union[anndata._core.anndata.AnnData, mudata._core.mudata.MuData], n_components: int = 30, max_iter: int = 500, min_rho: float = 0.0, max_rho: float = 0.5, alpha: int = 1, verbose: bool = False)

Run scOpen (Li et al., 2019, https://doi.org/10.1101/865931) on the count matrix

This function follows the original implementation of the main method (https://github.com/CostaLab/scopen/blob/master/scopen/Main.py) adapting it for AnnDaata and MuData formats.

Parameters

data – AnnData object with peak counts or multimodal MuData object with ‘atac’ modality.