scparadise.scnoah.get_samples

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scparadise.scnoah.get_samples#

scparadise.scnoah.get_samples(adata=None, path=None, path_save='', sample_col=None, samples=None)[source]#

Get samples from AnnData object. Specify path OR AnnData object. The function returns a new AnnData with selected samples.

Parameters:

  • adata (AnnData) – Annotated data matrix.

  • path (str, path object) – Path to the AnnData object if AnnData is not loaded into RAM.

  • path_save (str, path object) – Path to save fraction of AnnData

  • sample_col (str, (default: None)) – Key in adata.obs dataframe with samples names.

  • samples (list, (default: None)) – List of samples names in adata.obs[sample_col].

Returns:

New AnnData with some samples from the AnnData object. This part of the AnnData object can also be saved as adata_samples.h5ad.

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